Homo sapiens complex locus MTA1, encoding metastasis associated 1.
TABLE OF CONTENTS / OPEN CLOSE ALL PARAGRAPHS
SUMMARY back to top
RefSeq summary
[MTA1] This gene encodes a protein that was identified in a screen for genes expressed in metastatic cells, specifically, mammary adenocarcinoma cell lines. Expression of this gene has been correlated with the metastatic potential of at least two types of carcinomas although it is also expressed in many normal tissues. The role it plays in metastasis is unclear. It was initially thought to be the 70kD component of a nucleosome remodeling deacetylase complex, NuRD, but it is more likely that this component is a different but very similar protein. These two proteins are so closely related, though, that they share the same types of domains. These domains include two DNA binding domains, a dimerization domain, and a domain commonly found in proteins that methylate DNA. The profile and activity of this gene product suggest that it is involved in regulating transcription and that this may be accomplished by chromatin remodeling. [provided by RefSeq].

RefSeq annotates one representative transcript (NM included in AceView variant.b), but Homo sapiens cDNA sequences in GenBank, dbEST, Trace and SRA, filtered against clone rearrangements, coaligned on the genome and clustered in a minimal non-redundant way by the manually supervised AceView program, support at least 23 spliced variants.

AceView synopsis, each blue text links to tables and details
Note that this locus is complex: it appears to produce several proteins with no sequence overlap.
Expression: According to AceView, this gene is expressed at very high level, 5.0 times the average gene in this release. The sequence of this gene is defined by 574 GenBank accessions from 502 cDNA clones, some from brain (seen 54 times), lung (39), eye (29), stomach (19), lymph (17), breast (15), burkitt lymphoma (15) and 153 other tissues. We annotate structural defects or features in 56 cDNA clones.
Alternative mRNA variants and regulation: The gene contains 42 distinct introns (39 gt-ag, 2 gc-ag, 1 other). Transcription produces 28 different mRNAs, 23 alternatively spliced variants and 5 unspliced forms. There are 8 probable alternative promotors, 5 non overlapping alternative last exons and 5 validated alternative polyadenylation sites (see the diagram). The mRNAs appear to differ by truncation of the 5' end, truncation of the 3' end, presence or absence of 20 cassette exons, overlapping exons with different boundaries, splicing versus retention of 8 introns. 438 bp of this gene are antisense to spliced gene seysnar, raising the possibility of regulated alternate expression.
2 variants were isolated in vivo, despite the fact that they are predicted targets of nonsense mediated mRNA decay (NMD).
Efficacy of translation may be reduced by the presence of a shorter translated product (uORF) initiating at an AUG upstream of the main open reading frame (in variant dAug10).
Function: There are 56 articles specifically referring to this gene in PubMed. Functionally, the gene has been tested for association to diseases (Adenocarcinoma; Breast Neoplasms; Carcinoma, Non-Small-Cell Lung; Cell Transformation, Neoplastic; Liver Neoplasms; Lung Neoplasms; Mammary Neoplasms, Animal; Neoplasm Invasiveness; Neoplasm Metastasis; Neoplasms; Prostatic Neoplasms), proposed to participate in a pathway (Downregulated of MTA-3 in ER-negative Breast Tumors) and a process (regulation of transcription, DNA-dependent). Proteins are expected to have molecular functions (metal ion binding, protein binding, sequence-specific DNA binding, transcription factor activity, zinc ion binding) and to localize in various compartments (cytoplasm, membrane, mitochondrion, nucleus, NuRD complex). Putative protein interactors have been described (ATR, BLOC1S1ANDRDH5, CCNH, CDK7, CHD4, DDX18, DYNLL1, ESR1, FOXP1, GPR183, GRB2, HDAC1, HDAC2, HIF1AANDSNAPC1, ITGB3BP, MBD3L1, MNAT1, MTA1, MTA2, NAA10ANDARHGAP4ANDL1CAM, RBBP4, RBBP7, SH3GLB1, SIN3A, TH1L, TP53).
Protein coding potential: 23 spliced and 2 unspliced mRNAs putatively encode good proteins, altogether 26 different isoforms (10 complete, 12 COOH complete, 4 partial), some containing domains BAH domain, ELM2 domain, GATA zinc finger, Myb-like DNA-binding domain [Pfam], some transmembrane domains, a coiled coil stretch [Psort2]. The remaining 3 mRNA variants (3 unspliced; 2 partial) appear not to encode good proteins.
Isoform MTA1.dAug10 is annotated using as Met a Kozak-compatible a..CTG. start, thereby gaining 111 amino acids N-terminal to the first AUG. Finally proteins from this gene may be modulated by acetylation; mono-methylation; phosphorylation; ubiquitination, as detailed at PhosphoSite.

Please quote: AceView: a comprehensive cDNA-supported gene and transcripts annotation, Genome Biology 2006, 7(Suppl 1):S12.
Map on chromosome 14, links to other databases and other names
Map: This gene MTA1 maps on chromosome 14, at 14q32.3 according to Entrez Gene. In AceView, it covers 72.15 kb, from 105864913 to 105937066 (NCBI 37, August 2010), on the direct strand.
Links to: manual annotations from PhosphoSite, the SNP view, gene overviews from Gene 9112, GeneCards, expression data from Gene 9112, molecular and other annotations from UCSC, or our GOLD analysis.
The previous AceView annotation is here.
Other names: The gene is also known as MTA1 or LOC9112, jeeshobu. It has been described as metastasis-associated protein MTA1, OTTHUMP00000197217, OTTHUMP00000197219, OTTHUMP00000197222, metastasis associated protein, metastasis associated gene 1 protein.
Closest AceView homologs in other species ?
The closest mouse gene, according to BlastP, is the AceView gene Mta1 (e=10-48).
The closest C.elegans gene, according to BlastP, is the AceView/WormGene lin-40 (e=3 10-60), which may contain interesting functional annotation.
The closest A.thaliana gene, according to BlastP, is the AceView gene AT3G52250 (e=0.15), which may contain interesting functional annotation
RNA_seq discoveries back to top
Expression/conservation in primates tissues evaluated by cross-mapping to human. back to top
MTA1 Gene expression in 15 primates, 16 tissues, from the NHPRTR project in sFPKM BAB SkeletalMuscle WholeBlood CHP Kidney Liver Lung Spleen CMC CMM Cerebellum HUM Brain Colon Heart LymphNode Ovary Testis JMI BoneMarrow MLM OWL PTM RMC RMI Pituitary SQM Thymus MST SMY RTL 5.04 6.21 24.8 10.1 11.6 5.40 23.2 11.6 6.21 37.6 5.40 11.6 18.8 18.8 9.41 5.40 7.64 15.3 18.8 24.8 30.6 7.13 8.19 2.35 21.6 23.2 26.6 5.79 61.1 3.33 4.10 3.10 6.21 11.6 8.19 3.82 24.8 28.5 23.2 35.1 23.2 15.3 11.6 11.6 13.3 9.41 17.6 18.8 26.6 23.2 14.3 10.8 17.6 24.8 13.3 7.64 14.3 15.3 6.21 16.4 11.6 13.3 57.1 17.6 12.4 12.4 13.3 17.6 26.6 13.3 12.4 10.1 7.13 21.6 15.3 21.6 13.3 14.3 26.6 20.2 15.3 5.04 16.4 14.3 15.3 14.3 8.19 11.6 16.4 16.4 16.4 18.8 13.3 9.41 7.64 11.6 13.3 8.78 15.3 26.6 4.71 10.1 9.41 10.8 6.21 10.1 18.8 10.8 7.13 8.78 13.3 16.4 9.41 16.4 14.3 5.79 6.21 14.3 10.8 10.1 18.8 23.2 11.6 10.8 14.3 18.8 13.3 13.3 15.3 15.3 24.8 20.2 18.8 26.6 23.2 14.3 5.40 5.04 13.3 28.5 8.78 6.65 6.21 6.21 12.4 4.71 10.1 13.3 11.6 5.40 3.33 26.6 11.6 20.2 4.71 14.3 2.05 Expression quantiles None Weak 1 2 3 4 5 6 7 8 10 20 This gene All genes log2 distributions RNA-seq gene expression profile across 16 selected tissues from the Non-Human Primates Reference Transcriptome Resource (link to NHPRTR project).
- Primates: Apes (HUM: Human (Illumina BodyMap 2), CHP: Chimpanzee), Old World monkeys (PTM: Pig-Tailed Macaque, JMI Japanese Macaque, RMI Rhesus Macaque Indian, RMC Rhesus Macaque Chinese, CMM Cynomolgus Macaque Mauritian, CMC Cynomolgus Macaque Chinese, BAB Olive Baboon, SMY Sooty Mangabey); New World monkeys (MST common Marmoset, SQM Squirrel Monkey, OWL Owl Monkey); and Lemurs (MLM Mouse Lemur, RTL Ring-Tailed Lemur).
- The level for significantly expressed genes is color coded in 8 equal sized bins (light to dark green). Light gray is for weak not-accurately measured expression (2 to 8 reads above intergenic background); dark gray for no expression or no sequence conservation (0 read in gene). The plot to the right shows the distribution of measured expression values in all tissues for all genes (blue) and for this gene (green), in Magic index = log2(1000 sFPKM).
You may also examine the strand-specific genome coverage plots on the experimental AceView/Magic hub at UCSC, by tissue or by species. Tracks may be slow to load; please reload if some tracks come up yellow-greenish, and thanks to UCSC for the great work!.
Read more...
          Complete gene on genome diagram: back to top
Please choose between the zoomable GIF version., and the HTML5/SVG version.
This diagram shows in true scale the gene on the genome, the mRNAs and the cDNA clones.
Compact gene diagram back to top
Gene MTA1 5' 3' encoded on plus strand of chromosome 14 from 105,864,913 to 105,937,066 75118 20149 167k a ve-u 75118 72513 96993 167k 38k b [NM] 287 96993 167k 4984 c 469 n 20149 167k d 75118 1608 96993 e 43 72513 96993 167k j 4984 f 75118 72513 96993 167k 38k g 544 96993 167k o 38k h vf-u 21 i 72513 9 0 k 0 m vg-u l 75118 p 218 t q 72513 96993 167k vc vb-u 4984 r s u-u 96993 1 vd va 5kb 0 80 bp exon 80 bp exon 18608 bp [gt-ag] intron 36 GenBank accessions 75082 RNA-seq supporting reads 7095 UHR pooled cells 3739 Brain 1712 Blood 62310 Neuroblastoma 226 Other (also 2569 Primates bodymap) 68 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 94 bp exon 4546 bp [gt-ag] intron 16 GenBank accessions 20133 RNA-seq supporting reads 9098 UHR pooled cells 577 Brain 380 Blood 10027 Neuroblastoma 51 Other (also 477 Primates bodymap) 127 bp exon 64 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 118 bp exon 3959 bp [gt-ag] intron 98 GenBank accessions 166988 RNA-seq supporting reads 21134 UHR pooled cells 10409 Brain 4263 Blood 130475 Neuroblastoma 707 Other (also 5099 Primates bodymap) 103 bp exon 1985 bp [gt-ag] intron 95 GenBank accessions 195755 RNA-seq supporting reads 22034 UHR pooled cells 10871 Brain 2998 Blood 159113 Neuroblastoma 739 Other (also 3587 Primates bodymap) 100 bp exon 307 bp [gt-ag] intron 85 GenBank accessions 156518 RNA-seq supporting reads 19107 UHR pooled cells 9450 Brain 3441 Blood 123959 Neuroblastoma 561 Other (also 4186 Primates bodymap) 189 bp exon 2230 bp [gt-ag] intron 88 GenBank accessions 194616 RNA-seq supporting reads 25824 UHR pooled cells 12647 Brain 4187 Blood 151098 Neuroblastoma 860 Other (also 7670 Primates bodymap) 75 bp exon 234 bp [gt-ag] intron 83 GenBank accessions 165653 RNA-seq supporting reads 22541 UHR pooled cells 11055 Brain 3607 Blood 127572 Neuroblastoma 878 Other (also 7447 Primates bodymap) 59 bp exon 480 bp [gt-ag] intron 83 GenBank accessions 192709 RNA-seq supporting reads 24955 UHR pooled cells 12248 Brain 4427 Blood 150305 Neuroblastoma 774 Other (also 7387 Primates bodymap) 116 bp exon 268 bp [gt-ag] intron 67 GenBank accessions 133613 RNA-seq supporting reads 16355 UHR pooled cells 8628 Brain 2603 Blood 105587 Neuroblastoma 440 Other (also 4338 Primates bodymap) 152 bp exon 106 bp [gt-ag] intron 80 GenBank accessions 159920 RNA-seq supporting reads 20531 UHR pooled cells 10243 Brain 3127 Blood 125465 Neuroblastoma 554 Other (also 5058 Primates bodymap) 190 bp exon 230 bp [gt-ag] intron 74 GenBank accessions 113467 RNA-seq supporting reads 12643 UHR pooled cells 5950 Brain 944 Blood 93571 Neuroblastoma 359 Other (also 1810 Primates bodymap) 90 bp exon 1242 bp [gt-ag] intron 77 GenBank accessions 86057 RNA-seq supporting reads 9354 UHR pooled cells 4313 Brain 857 Blood 71292 Neuroblastoma 241 Other (also 2545 Primates bodymap) 153 bp exon 128 bp [gt-ag] intron 90 GenBank accessions 172282 RNA-seq supporting reads 18556 UHR pooled cells 12177 Brain 2390 Blood 138836 Neuroblastoma 323 Other (also 3892 Primates bodymap) 36 bp exon 1595 bp [gt-ag] intron 14 GenBank accessions 121006 RNA-seq supporting reads 381 UHR pooled cells 9182 Brain 175 Blood 111064 Neuroblastoma 204 Other (also 1101 Primates bodymap) 12 bp exon 1117 bp [gt-ag] intron 16 GenBank accessions 147199 RNA-seq supporting reads 417 UHR pooled cells 9995 Brain 188 Blood 136390 Neuroblastoma 209 Other (also 1204 Primates bodymap) 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 152 bp exon 174 bp exon 18 accessions, some from brain (seen 4 times) eye (2), neuroblastoma (2) retinoblastoma (2), adenocarcinoma cell line (once) 174 bp exon 2045 bp exon 2045 bp exon 10 accessions, some from caudate nucleus (seen 2 times) head neck (2), adrenal gland (once) lung (once), placenta normal (once) capped 5' end, 3 accessions Validated 3' end, 1 accession Validated 3' end, 2 accessions 2045 bp exon 244 bp exon 244 bp exon 18608 bp [gt-ag] intron 36 GenBank accessions 75082 RNA-seq supporting reads 7095 UHR pooled cells 3739 Brain 1712 Blood 62310 Neuroblastoma 226 Other (also 2569 Primates bodymap) 68 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 94 bp exon 3847 bp [gt-ag] intron 38 GenBank accessions 72475 RNA-seq supporting reads 5957 UHR pooled cells 6240 Brain 1908 Blood 58041 Neuroblastoma 329 Other (also 3627 Primates bodymap) 51 bp exon 648 bp [gt-ag] intron 45 GenBank accessions 96948 RNA-seq supporting reads 6431 UHR pooled cells 7202 Brain 2567 Blood 80339 Neuroblastoma 409 Other (also 3548 Primates bodymap) 127 bp exon 64 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 118 bp exon 3959 bp [gt-ag] intron 98 GenBank accessions 166988 RNA-seq supporting reads 21134 UHR pooled cells 10409 Brain 4263 Blood 130475 Neuroblastoma 707 Other (also 5099 Primates bodymap) 103 bp exon 1985 bp [gt-ag] intron 95 GenBank accessions 195755 RNA-seq supporting reads 22034 UHR pooled cells 10871 Brain 2998 Blood 159113 Neuroblastoma 739 Other (also 3587 Primates bodymap) 100 bp exon 307 bp [gt-ag] intron 85 GenBank accessions 156518 RNA-seq supporting reads 19107 UHR pooled cells 9450 Brain 3441 Blood 123959 Neuroblastoma 561 Other (also 4186 Primates bodymap) 189 bp exon 2230 bp [gt-ag] intron 88 GenBank accessions 194616 RNA-seq supporting reads 25824 UHR pooled cells 12647 Brain 4187 Blood 151098 Neuroblastoma 860 Other (also 7670 Primates bodymap) 75 bp exon 234 bp [gt-ag] intron 83 GenBank accessions 165653 RNA-seq supporting reads 22541 UHR pooled cells 11055 Brain 3607 Blood 127572 Neuroblastoma 878 Other (also 7447 Primates bodymap) 59 bp exon 480 bp [gt-ag] intron 83 GenBank accessions 192709 RNA-seq supporting reads 24955 UHR pooled cells 12248 Brain 4427 Blood 150305 Neuroblastoma 774 Other (also 7387 Primates bodymap) 116 bp exon 268 bp [gt-ag] intron 67 GenBank accessions 133613 RNA-seq supporting reads 16355 UHR pooled cells 8628 Brain 2603 Blood 105587 Neuroblastoma 440 Other (also 4338 Primates bodymap) 152 bp exon 106 bp [gt-ag] intron 80 GenBank accessions 159920 RNA-seq supporting reads 20531 UHR pooled cells 10243 Brain 3127 Blood 125465 Neuroblastoma 554 Other (also 5058 Primates bodymap) 190 bp exon 230 bp [gt-ag] intron 74 GenBank accessions 113467 RNA-seq supporting reads 12643 UHR pooled cells 5950 Brain 944 Blood 93571 Neuroblastoma 359 Other (also 1810 Primates bodymap) 90 bp exon 1242 bp [gt-ag] intron 77 GenBank accessions 86057 RNA-seq supporting reads 9354 UHR pooled cells 4313 Brain 857 Blood 71292 Neuroblastoma 241 Other (also 2545 Primates bodymap) 153 bp exon 128 bp [gt-ag] intron 90 GenBank accessions 172282 RNA-seq supporting reads 18556 UHR pooled cells 12177 Brain 2390 Blood 138836 Neuroblastoma 323 Other (also 3892 Primates bodymap) 36 bp exon 2724 bp [gt-ag] intron 79 GenBank accessions 38806 RNA-seq supporting reads 17449 UHR pooled cells 2476 Brain 2378 Blood 16398 Neuroblastoma 105 Other (also 2042 Primates bodymap) 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 152 bp exon 665 bp exon 324 accessions, NM_004689.3 some from lung (seen 31 times) brain (19), eye (19) stomach (15), lymph (13) 665 bp exon 16 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 94 bp exon 3635 bp [gt-ag] intron 3 GenBank accessions 284 RNA-seq supporting reads 4 UHR pooled cells 3 Brain 2 Blood 271 Neuroblastoma 4 Other (also 3 Primates bodymap) 263 bp exon 648 bp [gt-ag] intron 45 GenBank accessions 96948 RNA-seq supporting reads 6431 UHR pooled cells 7202 Brain 2567 Blood 80339 Neuroblastoma 409 Other (also 3548 Primates bodymap) 127 bp exon 127 bp exon 64 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 118 bp exon 3959 bp [gt-ag] intron 98 GenBank accessions 166988 RNA-seq supporting reads 21134 UHR pooled cells 10409 Brain 4263 Blood 130475 Neuroblastoma 707 Other (also 5099 Primates bodymap) 103 bp exon 1985 bp [gt-ag] intron 95 GenBank accessions 195755 RNA-seq supporting reads 22034 UHR pooled cells 10871 Brain 2998 Blood 159113 Neuroblastoma 739 Other (also 3587 Primates bodymap) 100 bp exon 307 bp [gt-ag] intron 85 GenBank accessions 156518 RNA-seq supporting reads 19107 UHR pooled cells 9450 Brain 3441 Blood 123959 Neuroblastoma 561 Other (also 4186 Primates bodymap) 189 bp exon 2230 bp [gt-ag] intron 88 GenBank accessions 194616 RNA-seq supporting reads 25824 UHR pooled cells 12647 Brain 4187 Blood 151098 Neuroblastoma 860 Other (also 7670 Primates bodymap) 75 bp exon 234 bp [gt-ag] intron 83 GenBank accessions 165653 RNA-seq supporting reads 22541 UHR pooled cells 11055 Brain 3607 Blood 127572 Neuroblastoma 878 Other (also 7447 Primates bodymap) 59 bp exon 480 bp [gt-ag] intron 83 GenBank accessions 192709 RNA-seq supporting reads 24955 UHR pooled cells 12248 Brain 4427 Blood 150305 Neuroblastoma 774 Other (also 7387 Primates bodymap) 116 bp exon 268 bp [gt-ag] intron 67 GenBank accessions 133613 RNA-seq supporting reads 16355 UHR pooled cells 8628 Brain 2603 Blood 105587 Neuroblastoma 440 Other (also 4338 Primates bodymap) 152 bp exon 106 bp [gt-ag] intron 80 GenBank accessions 159920 RNA-seq supporting reads 20531 UHR pooled cells 10243 Brain 3127 Blood 125465 Neuroblastoma 554 Other (also 5058 Primates bodymap) 190 bp exon 230 bp [gt-ag] intron 74 GenBank accessions 113467 RNA-seq supporting reads 12643 UHR pooled cells 5950 Brain 944 Blood 93571 Neuroblastoma 359 Other (also 1810 Primates bodymap) 90 bp exon 1242 bp [gt-ag] intron 77 GenBank accessions 86057 RNA-seq supporting reads 9354 UHR pooled cells 4313 Brain 857 Blood 71292 Neuroblastoma 241 Other (also 2545 Primates bodymap) 153 bp exon 2888 bp [gt-ag] intron 27 GenBank accessions 4957 RNA-seq supporting reads 4026 UHR pooled cells 164 Brain 1 Blood 765 Neuroblastoma 1 Other (also 33 Primates bodymap) 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 152 bp exon 174 bp exon 17 accessions, some from brain (seen 7 times) neuroblastoma, cell line (3) anaplastic oligodendroglioma (2) embryonic stem cells dmso-treated H9 cellline (2) anaplastic oligodendroglioma with 1p/19qloss (once) 174 bp exon 53 bp exon 53 bp exon 666 bp [gt-ag] intron 4 GenBank accessions 277 RNA-seq supporting reads 60 UHR pooled cells 11 Brain 40 Blood 164 Neuroblastoma 2 Other (also 26 Primates bodymap) 189 bp exon 11877 bp [gt-ag] intron 2 GenBank accessions 467 RNA-seq supporting reads 52 UHR pooled cells 33 Brain 47 Blood 335 Neuroblastoma (also 61 Primates bodymap) 129 bp exon 163 bp [gt-ag] intron 2 GenBank accessions 253 RNA-seq supporting reads 32 UHR pooled cells 25 Brain 14 Blood 181 Neuroblastoma 1 Other (also 40 Primates bodymap) 2199 bp exon 11 accessions, some from burkitt lymphoma (seen 3 times) lymph (3), lymph, burkitt lymphoma (2) eye (once), fetal eyes lens, eye anterior segment optic nerve, retina, retina foveal and macular RPE andchoroid (once) Validated 3' end, 4 accessions 2199 bp exon 68 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 94 bp exon 94 bp exon 96 bp uORF 4546 bp [gt-ag] intron 16 GenBank accessions 20133 RNA-seq supporting reads 9098 UHR pooled cells 577 Brain 380 Blood 10027 Neuroblastoma 51 Other (also 477 Primates bodymap) 96 bp uORF 267 bp exon 267 bp exon 267 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 118 bp exon 118 bp exon 3959 bp [gt-ag] intron 98 GenBank accessions 166988 RNA-seq supporting reads 21134 UHR pooled cells 10409 Brain 4263 Blood 130475 Neuroblastoma 707 Other (also 5099 Primates bodymap) 103 bp exon 103 bp exon 1985 bp [gt-ag] intron 95 GenBank accessions 195755 RNA-seq supporting reads 22034 UHR pooled cells 10871 Brain 2998 Blood 159113 Neuroblastoma 739 Other (also 3587 Primates bodymap) 100 bp exon 100 bp exon 307 bp [gt-ag] intron 85 GenBank accessions 156518 RNA-seq supporting reads 19107 UHR pooled cells 9450 Brain 3441 Blood 123959 Neuroblastoma 561 Other (also 4186 Primates bodymap) 189 bp exon 189 bp exon 2230 bp [gt-ag] intron 88 GenBank accessions 194616 RNA-seq supporting reads 25824 UHR pooled cells 12647 Brain 4187 Blood 151098 Neuroblastoma 860 Other (also 7670 Primates bodymap) 75 bp exon 75 bp exon 234 bp [gt-ag] intron 83 GenBank accessions 165653 RNA-seq supporting reads 22541 UHR pooled cells 11055 Brain 3607 Blood 127572 Neuroblastoma 878 Other (also 7447 Primates bodymap) 59 bp exon 59 bp exon 480 bp [gt-ag] intron 83 GenBank accessions 192709 RNA-seq supporting reads 24955 UHR pooled cells 12248 Brain 4427 Blood 150305 Neuroblastoma 774 Other (also 7387 Primates bodymap) 116 bp exon 116 bp exon 268 bp [gt-ag] intron 67 GenBank accessions 133613 RNA-seq supporting reads 16355 UHR pooled cells 8628 Brain 2603 Blood 105587 Neuroblastoma 440 Other (also 4338 Primates bodymap) 152 bp exon 152 bp exon 106 bp [gt-ag] intron 80 GenBank accessions 159920 RNA-seq supporting reads 20531 UHR pooled cells 10243 Brain 3127 Blood 125465 Neuroblastoma 554 Other (also 5058 Primates bodymap) 190 bp exon 190 bp exon 230 bp [gt-ag] intron 74 GenBank accessions 113467 RNA-seq supporting reads 12643 UHR pooled cells 5950 Brain 944 Blood 93571 Neuroblastoma 359 Other (also 1810 Primates bodymap) 90 bp exon 90 bp exon 1242 bp [gt-ag] intron 77 GenBank accessions 86057 RNA-seq supporting reads 9354 UHR pooled cells 4313 Brain 857 Blood 71292 Neuroblastoma 241 Other (also 2545 Primates bodymap) 153 bp exon 153 bp exon 128 bp [gt-ag] intron 90 GenBank accessions 172282 RNA-seq supporting reads 18556 UHR pooled cells 12177 Brain 2390 Blood 138836 Neuroblastoma 323 Other (also 3892 Primates bodymap) 36 bp exon 36 bp exon 1595 bp [gt-ag] intron 14 GenBank accessions 121006 RNA-seq supporting reads 381 UHR pooled cells 9182 Brain 175 Blood 111064 Neuroblastoma 204 Other (also 1101 Primates bodymap) 12 bp exon 12 bp exon 1117 bp [gt-ag] intron 16 GenBank accessions 147199 RNA-seq supporting reads 417 UHR pooled cells 9995 Brain 188 Blood 136390 Neuroblastoma 209 Other (also 1204 Primates bodymap) 32 bp exon 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 152 bp exon 152 bp exon 647 bp exon 647 bp exon 15 accessions, some from brain (seen 2 times) adenocarcinoma (once) astrocytoma grade IV cell line (once), b-cell chronic lymphotic leukemia (once) colon (once) 647 bp exon 45 bp exon 18608 bp [gt-ag] intron 36 GenBank accessions 75082 RNA-seq supporting reads 7095 UHR pooled cells 3739 Brain 1712 Blood 62310 Neuroblastoma 226 Other (also 2569 Primates bodymap) 68 bp exon 10619 bp [gt-ag] intron 1 GenBank accession 1607 RNA-seq supporting reads 66 UHR pooled cells 99 Brain 17 Blood 1418 Neuroblastoma 7 Other (also 39 Primates bodymap) 51 bp exon 648 bp [gt-ag] intron 45 GenBank accessions 96948 RNA-seq supporting reads 6431 UHR pooled cells 7202 Brain 2567 Blood 80339 Neuroblastoma 409 Other (also 3548 Primates bodymap) 127 bp exon 127 bp exon 64 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 106 bp exon Sequence gap 12661 bp 496 bp exon 1 accession from brain from frontal lobe 496 bp exon 60 bp exon 60 bp exon 666 bp [gt-ag] intron 4 GenBank accessions 277 RNA-seq supporting reads 60 UHR pooled cells 11 Brain 40 Blood 164 Neuroblastoma 2 Other (also 26 Primates bodymap) 189 bp exon 39181 bp [gt-ag] intron 3 GenBank accessions 40 RNA-seq supporting reads 22 UHR pooled cells 1 Brain 1 Blood 16 Neuroblastoma (also 6 Primates bodymap) 68 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 94 bp exon 3847 bp [gt-ag] intron 38 GenBank accessions 72475 RNA-seq supporting reads 5957 UHR pooled cells 6240 Brain 1908 Blood 58041 Neuroblastoma 329 Other (also 3627 Primates bodymap) 51 bp exon 648 bp [gt-ag] intron 45 GenBank accessions 96948 RNA-seq supporting reads 6431 UHR pooled cells 7202 Brain 2567 Blood 80339 Neuroblastoma 409 Other (also 3548 Primates bodymap) 127 bp exon 64 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 118 bp exon 3959 bp [gt-ag] intron 98 GenBank accessions 166988 RNA-seq supporting reads 21134 UHR pooled cells 10409 Brain 4263 Blood 130475 Neuroblastoma 707 Other (also 5099 Primates bodymap) 37 bp exon 5 accessions, some from brain (seen 2 times) medulla (2), amnion normal (once) ascites (once), stomach (once) 37 bp exon 293 bp exon 480 bp [gt-ag] intron 83 GenBank accessions 192709 RNA-seq supporting reads 24955 UHR pooled cells 12248 Brain 4427 Blood 150305 Neuroblastoma 774 Other (also 7387 Primates bodymap) 116 bp exon 268 bp [gt-ag] intron 67 GenBank accessions 133613 RNA-seq supporting reads 16355 UHR pooled cells 8628 Brain 2603 Blood 105587 Neuroblastoma 440 Other (also 4338 Primates bodymap) 152 bp exon 106 bp [gt-ag] intron 80 GenBank accessions 159920 RNA-seq supporting reads 20531 UHR pooled cells 10243 Brain 3127 Blood 125465 Neuroblastoma 554 Other (also 5058 Primates bodymap) 190 bp exon 230 bp [gt-ag] intron 74 GenBank accessions 113467 RNA-seq supporting reads 12643 UHR pooled cells 5950 Brain 944 Blood 93571 Neuroblastoma 359 Other (also 1810 Primates bodymap) 90 bp exon 1242 bp [gt-ag] intron 77 GenBank accessions 86057 RNA-seq supporting reads 9354 UHR pooled cells 4313 Brain 857 Blood 71292 Neuroblastoma 241 Other (also 2545 Primates bodymap) 153 bp exon 2888 bp [gt-ag] intron 27 GenBank accessions 4957 RNA-seq supporting reads 4026 UHR pooled cells 164 Brain 1 Blood 765 Neuroblastoma 1 Other (also 33 Primates bodymap) 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 152 bp exon 663 bp exon 17 accessions, some from 2 pooled wilms' tumors one primary and onemetastatic to brain (seen once) eye (once), fetal eye (once) kidney (once), large cell carcinoma (once) Validated 3' end, 1 accession 663 bp exon 48 bp exon 48 bp exon 48 bp exon 18608 bp [gt-ag] intron 36 GenBank accessions 75082 RNA-seq supporting reads 7095 UHR pooled cells 3739 Brain 1712 Blood 62310 Neuroblastoma 226 Other (also 2569 Primates bodymap) 68 bp exon 68 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 94 bp exon 94 bp exon 3847 bp [gt-ag] intron 38 GenBank accessions 72475 RNA-seq supporting reads 5957 UHR pooled cells 6240 Brain 1908 Blood 58041 Neuroblastoma 329 Other (also 3627 Primates bodymap) 51 bp exon 51 bp exon 648 bp [gt-ag] intron 45 GenBank accessions 96948 RNA-seq supporting reads 6431 UHR pooled cells 7202 Brain 2567 Blood 80339 Neuroblastoma 409 Other (also 3548 Primates bodymap) 127 bp exon 127 bp exon 64 bp exon 64 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 118 bp exon 118 bp exon 3959 bp [gt-ag] intron 98 GenBank accessions 166988 RNA-seq supporting reads 21134 UHR pooled cells 10409 Brain 4263 Blood 130475 Neuroblastoma 707 Other (also 5099 Primates bodymap) 103 bp exon 103 bp exon 1985 bp [gt-ag] intron 95 GenBank accessions 195755 RNA-seq supporting reads 22034 UHR pooled cells 10871 Brain 2998 Blood 159113 Neuroblastoma 739 Other (also 3587 Primates bodymap) 100 bp exon 100 bp exon 307 bp [gt-ag] intron 85 GenBank accessions 156518 RNA-seq supporting reads 19107 UHR pooled cells 9450 Brain 3441 Blood 123959 Neuroblastoma 561 Other (also 4186 Primates bodymap) 189 bp exon 189 bp exon 2230 bp [gt-ag] intron 88 GenBank accessions 194616 RNA-seq supporting reads 25824 UHR pooled cells 12647 Brain 4187 Blood 151098 Neuroblastoma 860 Other (also 7670 Primates bodymap) 75 bp exon 75 bp exon 234 bp [gt-ag] intron 83 GenBank accessions 165653 RNA-seq supporting reads 22541 UHR pooled cells 11055 Brain 3607 Blood 127572 Neuroblastoma 878 Other (also 7447 Primates bodymap) 59 bp exon 59 bp exon 480 bp [gt-ag] intron 83 GenBank accessions 192709 RNA-seq supporting reads 24955 UHR pooled cells 12248 Brain 4427 Blood 150305 Neuroblastoma 774 Other (also 7387 Primates bodymap) 116 bp exon 116 bp exon 315 bp [gt-ag] intron 11 GenBank accessions 29194 RNA-seq supporting reads 2972 UHR pooled cells 1197 Brain 768 Blood 24155 Neuroblastoma 102 Other (also 1239 Primates bodymap) 105 bp exon 105 bp exon 105 bp exon 105 bp exon 106 bp [gt-ag] intron 80 GenBank accessions 159920 RNA-seq supporting reads 20531 UHR pooled cells 10243 Brain 3127 Blood 125465 Neuroblastoma 554 Other (also 5058 Primates bodymap) 190 bp exon 190 bp exon 230 bp [gt-ag] intron 74 GenBank accessions 113467 RNA-seq supporting reads 12643 UHR pooled cells 5950 Brain 944 Blood 93571 Neuroblastoma 359 Other (also 1810 Primates bodymap) 90 bp exon 90 bp exon 1242 bp [gt-ag] intron 77 GenBank accessions 86057 RNA-seq supporting reads 9354 UHR pooled cells 4313 Brain 857 Blood 71292 Neuroblastoma 241 Other (also 2545 Primates bodymap) 153 bp exon 153 bp exon 128 bp [gt-ag] intron 90 GenBank accessions 172282 RNA-seq supporting reads 18556 UHR pooled cells 12177 Brain 2390 Blood 138836 Neuroblastoma 323 Other (also 3892 Primates bodymap) 36 bp exon 36 bp exon 2724 bp [gt-ag] intron 79 GenBank accessions 38806 RNA-seq supporting reads 17449 UHR pooled cells 2476 Brain 2378 Blood 16398 Neuroblastoma 105 Other (also 2042 Primates bodymap) 32 bp exon 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 152 bp exon 152 bp exon 174 bp exon 174 bp exon 6 accessions, some from ascites (seen once) blastocyst (once), breast (once) cornea (once), eye (once) 174 bp exon 28 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 94 bp exon 155 bp [gt-ag] intron 2 GenBank accessions 16770 RNA-seq supporting reads 188 UHR pooled cells 703 Brain 234 Blood 15613 Neuroblastoma 32 Other (also 8 Primates bodymap) 186 bp exon 3506 bp [gt-ag] intron 2 GenBank accessions 542 RNA-seq supporting reads 6 UHR pooled cells 19 Brain 2 Blood 513 Neuroblastoma 2 Other 51 bp exon 648 bp [gt-ag] intron 45 GenBank accessions 96948 RNA-seq supporting reads 6431 UHR pooled cells 7202 Brain 2567 Blood 80339 Neuroblastoma 409 Other (also 3548 Primates bodymap) 127 bp exon 127 bp exon 64 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 118 bp exon 3959 bp [gt-ag] intron 98 GenBank accessions 166988 RNA-seq supporting reads 21134 UHR pooled cells 10409 Brain 4263 Blood 130475 Neuroblastoma 707 Other (also 5099 Primates bodymap) 103 bp exon 1985 bp [gt-ag] intron 95 GenBank accessions 195755 RNA-seq supporting reads 22034 UHR pooled cells 10871 Brain 2998 Blood 159113 Neuroblastoma 739 Other (also 3587 Primates bodymap) 100 bp exon 307 bp [gt-ag] intron 85 GenBank accessions 156518 RNA-seq supporting reads 19107 UHR pooled cells 9450 Brain 3441 Blood 123959 Neuroblastoma 561 Other (also 4186 Primates bodymap) 2 accessions, some from fetal brain (seen 2 times) brain (once) 36 bp exon 33 bp exon 106 bp [gt-ag] intron 80 GenBank accessions 159920 RNA-seq supporting reads 20531 UHR pooled cells 10243 Brain 3127 Blood 125465 Neuroblastoma 554 Other (also 5058 Primates bodymap) 190 bp exon 230 bp [gt-ag] intron 74 GenBank accessions 113467 RNA-seq supporting reads 12643 UHR pooled cells 5950 Brain 944 Blood 93571 Neuroblastoma 359 Other (also 1810 Primates bodymap) 90 bp exon 1242 bp [gt-ag] intron 77 GenBank accessions 86057 RNA-seq supporting reads 9354 UHR pooled cells 4313 Brain 857 Blood 71292 Neuroblastoma 241 Other (also 2545 Primates bodymap) 153 bp exon 128 bp [gt-ag] intron 90 GenBank accessions 172282 RNA-seq supporting reads 18556 UHR pooled cells 12177 Brain 2390 Blood 138836 Neuroblastoma 323 Other (also 3892 Primates bodymap) 36 bp exon 2724 bp [gt-ag] intron 79 GenBank accessions 38806 RNA-seq supporting reads 17449 UHR pooled cells 2476 Brain 2378 Blood 16398 Neuroblastoma 105 Other (also 2042 Primates bodymap) 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 887 bp exon 7 accessions, some from marrow (seen 2 times) brain (once), breast (once) chondrosarcoma (once) left pelvis (once) Validated 3' end, 1 accession 887 bp exon 676 bp exon 676 bp exon 1 accession from embryonic stem cells embryoid bodiesderived from H1 H7 and H9 cells 676 bp exon 60 bp exon 2539 bp [gt-ag] intron 1 GenBank accession 20 RNA-seq supporting reads 8 UHR pooled cells 2 Brain 10 Neuroblastoma 59 bp exon 480 bp [gt-ag] intron 83 GenBank accessions 192709 RNA-seq supporting reads 24955 UHR pooled cells 12248 Brain 4427 Blood 150305 Neuroblastoma 774 Other (also 7387 Primates bodymap) 116 bp exon 268 bp [gt-ag] intron 67 GenBank accessions 133613 RNA-seq supporting reads 16355 UHR pooled cells 8628 Brain 2603 Blood 105587 Neuroblastoma 440 Other (also 4338 Primates bodymap) 152 bp exon 106 bp [gt-ag] intron 80 GenBank accessions 159920 RNA-seq supporting reads 20531 UHR pooled cells 10243 Brain 3127 Blood 125465 Neuroblastoma 554 Other (also 5058 Primates bodymap) 190 bp exon 230 bp [gt-ag] intron 74 GenBank accessions 113467 RNA-seq supporting reads 12643 UHR pooled cells 5950 Brain 944 Blood 93571 Neuroblastoma 359 Other (also 1810 Primates bodymap) 90 bp exon 1242 bp [gt-ag] intron 77 GenBank accessions 86057 RNA-seq supporting reads 9354 UHR pooled cells 4313 Brain 857 Blood 71292 Neuroblastoma 241 Other (also 2545 Primates bodymap) 153 bp exon 128 bp [gt-ag] intron 90 GenBank accessions 172282 RNA-seq supporting reads 18556 UHR pooled cells 12177 Brain 2390 Blood 138836 Neuroblastoma 323 Other (also 3892 Primates bodymap) 1428 bp exon 9 accessions, some from brain (seen 3 times) fetal brain (2), eye (once) human retina (once), leukocyte (once) 1428 bp exon 188 bp exon 188 bp exon 16513 bp [gt-ag] intron 2 GenBank accessions 889 RNA-seq supporting reads 43 UHR pooled cells 66 Brain 17 Blood 758 Neuroblastoma 5 Other 68 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 94 bp exon 3847 bp [gt-ag] intron 38 GenBank accessions 72475 RNA-seq supporting reads 5957 UHR pooled cells 6240 Brain 1908 Blood 58041 Neuroblastoma 329 Other (also 3627 Primates bodymap) 51 bp exon 460 bp [gt-ag] intron 2 GenBank accessions 7 RNA-seq supporting reads 7 Neuroblastoma 112 bp exon 76 bp [gt-ag] fuzzy intron only supported by zero RefSeq model 127 bp exon 56 bp exon 2 accessions, some from brain (seen once) 56 bp exon 73 bp exon 2230 bp [gt-ag] intron 88 GenBank accessions 194616 RNA-seq supporting reads 25824 UHR pooled cells 12647 Brain 4187 Blood 151098 Neuroblastoma 860 Other (also 7670 Primates bodymap) 75 bp exon 234 bp [gt-ag] intron 83 GenBank accessions 165653 RNA-seq supporting reads 22541 UHR pooled cells 11055 Brain 3607 Blood 127572 Neuroblastoma 878 Other (also 7447 Primates bodymap) 59 bp exon 480 bp [gt-ag] intron 83 GenBank accessions 192709 RNA-seq supporting reads 24955 UHR pooled cells 12248 Brain 4427 Blood 150305 Neuroblastoma 774 Other (also 7387 Primates bodymap) 116 bp exon 315 bp [gt-ag] intron 11 GenBank accessions 29194 RNA-seq supporting reads 2972 UHR pooled cells 1197 Brain 768 Blood 24155 Neuroblastoma 102 Other (also 1239 Primates bodymap) 401 bp exon 401 bp exon 230 bp [gt-ag] intron 74 GenBank accessions 113467 RNA-seq supporting reads 12643 UHR pooled cells 5950 Brain 944 Blood 93571 Neuroblastoma 359 Other (also 1810 Primates bodymap) 90 bp exon 1242 bp [gt-ag] intron 77 GenBank accessions 86057 RNA-seq supporting reads 9354 UHR pooled cells 4313 Brain 857 Blood 71292 Neuroblastoma 241 Other (also 2545 Primates bodymap) 153 bp exon 128 bp [gt-ag] intron 90 GenBank accessions 172282 RNA-seq supporting reads 18556 UHR pooled cells 12177 Brain 2390 Blood 138836 Neuroblastoma 323 Other (also 3892 Primates bodymap) 36 bp exon 3098 bp [gt-ag] fuzzy intron only supported by zero RefSeq model 152 bp exon 152 bp exon 2 accessions, some from lung (seen once) lymph (once), lymphoma cell line (once), small cell carcinoma (once) 102 bp exon 452 bp exon 452 bp exon 3 accessions, some from uterus (seen once) 452 bp exon 2827 bp exon 2827 bp exon 78 bp uORF 2827 bp exon 2827 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 152 bp exon 152 bp exon 663 bp exon 663 bp exon 31 accessions, some from brain (seen 5 times) uterus (5), serous papillary carcinoma high grade, 2pooled tumors (3) breast (2), eye (2) capped 5' end, 4 accessions 663 bp exon 71 bp exon 71 bp exon 18608 bp [gt-ag] intron 36 GenBank accessions 75082 RNA-seq supporting reads 7095 UHR pooled cells 3739 Brain 1712 Blood 62310 Neuroblastoma 226 Other (also 2569 Primates bodymap) 68 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 66 bp exon Sequence gap 174 bp 620 bp exon 620 bp exon Sequence gap 195 bp 2 accessions, some from brain (seen once) 788 bp exon 80 bp exon 80 bp exon 2230 bp [gt-ag] intron 88 GenBank accessions 194616 RNA-seq supporting reads 25824 UHR pooled cells 12647 Brain 4187 Blood 151098 Neuroblastoma 860 Other (also 7670 Primates bodymap) 75 bp exon 234 bp [gt-ag] intron 83 GenBank accessions 165653 RNA-seq supporting reads 22541 UHR pooled cells 11055 Brain 3607 Blood 127572 Neuroblastoma 878 Other (also 7447 Primates bodymap) 59 bp exon 480 bp [gt-ag] intron 83 GenBank accessions 192709 RNA-seq supporting reads 24955 UHR pooled cells 12248 Brain 4427 Blood 150305 Neuroblastoma 774 Other (also 7387 Primates bodymap) 69 bp exon 6400 bp [gc-ag] intron 1 GenBank accession 217 RNA-seq supporting reads 21 UHR pooled cells 11 Brain 182 Neuroblastoma 3 Other 114 bp exon 1 accession from anaplastic oligodendroglioma from brain 114 bp exon 761 bp exon 761 bp exon 174 bp exon 10 accessions, some from lymph node (seen 2 times) melanoma (mewo cell line) (2) stomach (2), t-lymphocytes (2) adenocarcinoma (once) 174 bp exon 68 bp exon 68 bp exon 6678 bp [gt-ag] intron 51 GenBank accessions 109947 RNA-seq supporting reads 13156 UHR pooled cells 6961 Brain 4222 Blood 85161 Neuroblastoma 447 Other (also 4818 Primates bodymap) 94 bp exon 3847 bp [gt-ag] intron 38 GenBank accessions 72475 RNA-seq supporting reads 5957 UHR pooled cells 6240 Brain 1908 Blood 58041 Neuroblastoma 329 Other (also 3627 Primates bodymap) 51 bp exon 648 bp [gt-ag] intron 45 GenBank accessions 96948 RNA-seq supporting reads 6431 UHR pooled cells 7202 Brain 2567 Blood 80339 Neuroblastoma 409 Other (also 3548 Primates bodymap) 267 bp exon 267 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 118 bp exon 3959 bp [gt-ag] intron 98 GenBank accessions 166988 RNA-seq supporting reads 21134 UHR pooled cells 10409 Brain 4263 Blood 130475 Neuroblastoma 707 Other (also 5099 Primates bodymap) 1 accession from brain from fetal brain 103 bp exon 666 bp exon 666 bp exon 3 accessions, some from breast (seen 3 times) 666 bp exon 40 bp exon 2888 bp [gt-ag] intron 27 GenBank accessions 4957 RNA-seq supporting reads 4026 UHR pooled cells 164 Brain 1 Blood 765 Neuroblastoma 1 Other (also 33 Primates bodymap) 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 388 bp exon 1 accession 388 bp exon 95 bp exon 95 bp exon 306 bp [gc-ag] intron 2 GenBank accessions 32 RNA-seq supporting reads 32 Brain (also 19 Primates bodymap) 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 152 bp exon 182 bp exon 2 accessions, some from breast (seen once) 182 bp exon 418 bp exon 418 bp exon 1 accession 418 bp exon 367 bp exon 648 bp [gt-ag] intron 45 GenBank accessions 96948 RNA-seq supporting reads 6431 UHR pooled cells 7202 Brain 2567 Blood 80339 Neuroblastoma 409 Other (also 3548 Primates bodymap) 127 bp exon 127 bp exon 64 bp exon 3868 bp [gt-ag] intron 91 GenBank accessions 151706 RNA-seq supporting reads 19606 UHR pooled cells 9963 Brain 4376 Blood 117068 Neuroblastoma 693 Other (also 6033 Primates bodymap) 118 bp exon 317 bp [gt-ag] intron 1 GenBank accession 789 RNA-seq supporting reads 204 UHR pooled cells 24 Brain 30 Blood 530 Neuroblastoma 1 Other (also 2 Primates bodymap) 79 bp exon 79 bp exon 3568 bp [ag-ag] fuzzy intron 1 GenBank accession 1 accession from spleen 97 bp exon 727 bp exon 727 bp exon 1117 bp [gt-ag] intron 16 GenBank accessions 147199 RNA-seq supporting reads 417 UHR pooled cells 9995 Brain 188 Blood 136390 Neuroblastoma 209 Other (also 1204 Primates bodymap) 32 bp exon 342 bp [gt-ag] intron 156 GenBank accessions 118743 RNA-seq supporting reads 25062 UHR pooled cells 8843 Brain 3616 Blood 80915 Neuroblastoma 307 Other (also 3087 Primates bodymap) 152 bp exon 174 bp exon 3 accessions, some from eye (seen 2 times) fetal eyes, lens, eye anterior segment optic nerve, retina, retina foveal and macular RPE andchoroid (once) retina (once) 174 bp exon Alternative mRNAs are shown aligned from 5' to 3' on a virtual genome where introns have been shrunk to a minimal length. Exon size is proportional to length, intron height reflects the number of cDNAs supporting each intron, the small numbers show the support of the introns in deep sequencing (with details in mouse-over) . Introns of the same color are identical, of different colors are different. 'Good proteins' are pink, partial or not-good proteins are yellow, uORFs are green. 5' cap or3' poly A flags show completeness of the transcript.
Read more...
Sequences: click on the numbers to get the DNA back to top


Click on the headers to reorder the lines
mRNA variant mRNA matching the genome Best predicted protein 5' UTR 3' UTR uORF Upstream sequence Transcription
unit
pre-mRNA		 Downstream sequence
aAug10 2184 bp 719 aa   23 bp   2kb 50255 bp 1kb
bAug10 2878 bp 715 aa 216 bp 514 bp   2kb possibly including promoter 50910 bp 1kb
cAug10 2267 bp 617 aa 390 bp 23 bp   2kb possibly including promoter 31515 bp 1kb
dAug10 2653 bp 590 aa 384 bp 496 bp 93 bp 2kb possibly including promoter 32040 bp 1kb
eAug10 1800 bp 483 aa 181 bp 167 bp   2kb possibly including promoter 47437 bp 1kb
fAug10 1841 bp 442 aa   512 bp   2kb 7469 bp 1kb
gAug10 2144 bp 436 aa   831 bp   2kb 50223 bp 1kb
    284 aa 1266 bp 23 bp   2kb 50223 bp 1kb
hAug10 1421 bp 302 aa   512 bp   2kb 6193 bp 1kb
iAug10 2248 bp 300 aa   1345 bp   2kb 7241 bp 1kb
jAug10 808 bp 268 aa       2kb 59731 bp 1kb
kAug10 696 bp 231 aa       2kb 28346 bp 1kb
lAug10 3642 bp 184 aa 2575 bp 512 bp 75 bp 2kb including Promoter 4056 bp 1kb
mAug10 1257 bp 180 aa 582 bp 132 bp   2kb possibly including promoter 9286 bp 1kb
nAug10 2570 bp 180 aa   2025 bp   2kb 15276 bp 1kb
oAug10 907 bp 177 aa 376 bp     2kb possibly including promoter 22089 bp 1kb
pAug10 1893 bp 173 aa   1370 bp   2kb 27268 bp 1kb
qAug10 935 bp 168 aa 405 bp 23 bp   2kb possibly including promoter 1007 bp 1kb
rAug10 460 bp 148 aa   13 bp   2kb 3690 bp 1kb
sAug10 461 bp 142 aa   31 bp   2kb 1181 bp 1kb
tAug10 397 bp 130 aa       2kb 9741 bp 1kb
uAug10-unspliced 418 bp 130 aa   23 bp   2kb 418 bp 1kb
vaAug10 1085 bp 127 aa 678 bp 23 bp   2kb possibly including promoter 2616 bp 1kb
vbAug10-unspliced 666 bp 123 aa 296 bp     2kb possibly including promoter 666 bp 1kb
vcAug10 701 bp 113 aa   357 bp   2kb 19701 bp 1kb
vdAug10 852 bp 111 aa 384 bp 132 bp   2kb possibly including promoter 9329 bp 1kb
veAug10-unspliced 2045 bp 94 aa 358 bp 1402 bp   2kb including Promoter 2045 bp 1kb
vfAug10-unspliced 676 bp 93 aa   393 bp   2kb 676 bp 1kb
vgAug10-unspliced 452 bp 81 aa 207 bp     2kb 452 bp 1kb
Gene neighbors and Navigator on chromosome 14q32.3 back to top
MTA1 Title complex locus MTA1, encoding metastasis associated 1. Summary [RefSeq Summary MTA1] This gene encodes a protein that was identified in a screen for genes expressed in metastatic cells, specifically, mammary adenocarcinoma cell lines. Expression of this gene has been correlated with the metastatic potential of at least two types of carcinomas although it is also expressed in many normal tissues. The role it plays in metastasis is unclear. It was initially thought to be the 70kD component of a nucleosome remodeling deacetylase complex, NuRD, but it is more likely that this component is a different but very similar protein. These two proteins are so closely related, though, that they share the same types of domains. These domains include two DNA binding domains, a dimerization domain, and a domain commonly found in proteins that methylate DNA. The profile and activity of this gene product suggest that it is involved in regulating transcription and that this may be accomplished by chromatin remodeling. [provided by RefSeq] Transcribed_gene MTA1 Product -----> 33 NewName 14_105864913 NewNameOld jeeshobu GeneId 9112 Other_geneId 9112 LocusLink MTA1 Unigene Hs.525629 Type Spliced_gene Molecular -----> 7 Genetic Pastille_disease Extern OMIM_603526 Details OMIM_title metastasis-associated gene 1 GAD_131096 Details Disease_class CANCER GAD_title Breast Neoplasms Neoplasm Metastasis GAD_alias breast cancer cell proliferation using antisense phosphorothioate oligonucleotides Properties [Nawa A et al. 2000, Kevin Becker GAD] GAD_151399 Details Disease_class CANCER GAD_title Neoplasms Breast Neoplasms Neoplasm Metastasis Genetic Predisposition to Disease GAD_alias Breast cancer Properties [Yu, J. C. et al. 2006, CDC] Phs_Q13330 h_mta3 Details Biocarta_title Downregulated of MTA-3 in ER-negative Breast Tumors Go_b_iea regulation of transcription, DNA-dependent IEA Expression GO_c_psort nucleus MTA1.lAug10 MTA1.qAug10 MTA1.cAug10 MTA1.dAug10 cytoplasm MTA1.vdAug10 mitochondrion MTA1.mAug10 membrane MTA1.tAug10 Go_c_iea NuRD complex IEA MicroArray UKv4_A_23_P9513 UKv4_A_24_P241370 UKv4_A_24_P241373 UKv4_Hs101448.1 Regulation Pastille_regulation pastille_regulation_complex_locus pastille_regulation_structure pastille_regulation_NMD pastille_regulation_Valid3p pastille_regulation_uORF pastille_regulation_antisens Complex_locus Two_product Kozak non_ATG_start Interacts with_gene -----> 26 with_geneId -----> 26 Reference -----> 56 Structure -----> 7 Position Balise Map 14 IntMap 14 105864913 105937066 Cytogenetic 14q32.3 SMAP S_Parent Genomic_sequence t14_NT_026437.12_147 Quit Update Attach... Biblio ZOOM IN                D:disease,C:conserved,I:interactions,R:regulation,P:publications         Read more...
Annotated mRNA diagrams back to top
Bibliography:               56 articles in PubMed back to top
? Gene Summary Gene on genome mRNA:.a, .b, .c, .d, .e, .f, .g, .h, .i, .j, .k, .l, .m, .n, .o, .p, .q, .r, .s, .t, .u-u, .va, .vb-u, .vc, .vd, .ve-u, .vf-u, .vg-u Alternative mRNAs features, proteins, introns, exons, sequences Expression Tissue Function, regulation, related genes DCI

To mine knowledge about the gene, please click the 'Gene Summary' or the 'Function, regulation, related genes ' tab at the top of the page. The 'Gene Summary' page includes all we learnt about the gene, functional annotations of neighboring genes, maps, links to other sites and the bibliography. The 'Function, regulation, related genes ' page includes Diseases (D), Pathways, GO annotations, conserved domains (C), interactions (I) reference into function, and pointers to all genes with the same functional annotation.
To compare alternative variants, their summarized annotations, predicted proteins, introns and exons, or to access any sequence, click the 'Alternative mRNAs features' tab. To see a specific mRNA variant diagram, sequence and annotation, click the variant name in the 'mRNA' tab. To examine expression data from all cDNAs clustered in this gene by AceView, click the 'Expression tissue'.

If you know more about this gene, or found errors, please share your knowledge. Thank you !