Homo sapiens complex locus TMEM209, encoding transmembrane protein 209.
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SUMMARY back to top
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 11 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 high level, 1.9 times the average gene in this release. The sequence of this gene is defined by 220 GenBank accessions from 206 cDNA clones, some from pnet (seen 23 times), testis (21), breast (11), brain (9), leukopheresis (9), breast carcinoma (7), lung (7) and 68 other tissues. We annotate structural defects or features in 5 cDNA clones.
Alternative mRNA variants and regulation: The gene contains 23 distinct introns (22 gt-ag, 1 gc-ag). Transcription produces 13 different mRNAs, 11 alternatively spliced variants and 2 unspliced forms. There are 6 probable alternative promotors, 5 non overlapping alternative last exons and 3 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 2 cassette exons, overlapping exons with different boundaries, splicing versus retention of one intron. 308 bp of this gene are antisense to spliced gene sihuya, 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 bAug10, fAug10, gAug10).
Function: There are 2 articles specifically referring to this gene in PubMed. Proteins are expected to localize in integral to membrane. No phenotype has yet been reported to our knowledge: this gene's in vivo function is yet unknown.
Protein coding potential: 9 spliced mRNAs putatively encode good proteins, altogether 8 different isoforms (4 complete, 1 COOH complete, 3 partial), some containing Cytochrome B561, N terminal domain [Pfam]. The remaining 4 mRNA variants (2 spliced, 2 unspliced; 2 partial) appear not to encode good proteins. Finally proteins from this gene may be modulated by acetylation; 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 7, links to other databases and other names
Map: This gene TMEM209 maps on chromosome 7, at 7q32.2 according to Entrez Gene. In AceView, it covers 43.07 kb, from 129847610 to 129804540 (NCBI 37, August 2010), on the reverse strand.
Links to: manual annotations from PhosphoSite, the SNP view, gene overviews from Entrez Gene 84928, GeneCards, expression data from ECgene, UniGene, molecular and other annotations from UCSC, or our GOLD analysis.
The previous AceView annotation is here.
Other names: The gene is also known as TMEM209, NET31 or FLJ14803, LOC84928. It has been described as transmembrane protein 209, OTTHUMP00000212344, OTTHUMP00000212345.
Closest AceView homologs in other species ?
The closest mouse gene, according to BlastP, is the AceView gene 2700094F01Rik (e=5 10-54).
The closest C.elegans gene, according to BlastP, is the AceView/WormGene 3K554 (e=7 10-13).
The closest A.thaliana gene, according to BlastP, is the AceView gene AT1G07970 (e=4 10-11)
RNA_seq discoveries back to top
Expression/conservation in primates tissues evaluated by cross-mapping to human. back to top
TMEM209 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 2.90 5.79 8.19 3.57 4.10 2.70 7.64 1.91 5.40 3.57 4.71 13.3 4.71 7.13 10.1 10.8 3.10 6.65 8.19 13.3 14.3 13.3 7.64 3.82 4.71 5.40 15.3 6.65 17.6 3.82 4.71 2.70 5.79 4.10 6.21 3.57 1.78 2.35 2.52 5.40 3.82 3.10 5.79 6.21 6.65 3.82 8.19 8.19 2.90 2.70 4.10 16.4 5.79 9.41 4.71 2.19 6.65 8.19 8.78 8.19 5.40 4.39 7.13 14.3 3.33 5.04 2.90 6.21 3.82 4.71 4.71 4.10 1.91 8.19 8.78 9.41 5.40 6.65 3.10 5.04 5.04 2.90 8.78 6.65 7.13 8.19 6.21 4.39 5.04 3.10 8.19 5.79 5.79 5.40 2.90 4.71 8.19 2.70 7.64 9.41 10.1 10.1 9.41 9.41 6.65 9.41 10.1 10.1 6.21 10.8 4.71 5.79 5.40 8.78 7.64 2.90 2.52 7.13 7.64 4.71 4.71 8.19 5.40 3.33 5.04 7.64 5.40 7.13 7.13 6.65 9.41 10.8 5.79 7.64 8.78 5.79 10.1 13.3 17.6 10.8 2.35 4.10 3.82 1.91 4.71 1.66 7.64 8.78 5.40 28.5 10.8 4.39 3.33 8.19 4.10 6.65 3.57 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!.
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          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 TMEM209 5' 3' encoded on minus strand of chromosome 7 from 129,847,610 to 129,804,540 8749 22413 25870 26663 29062 28365 32680 30810 27278 30815 43469 39618 32706 33540 a 8749 22413 25870 26663 29062 28365 32680 30810 27278 30815 43469 39618 32706 33540 b [NM] 8749 22413 25870 26663 29062 28365 32680 30810 2532 43469 39618 32706 33540 c 8749 22413 25870 26663 d k-u 1 1 22413 25870 26663 e 30810 27278 1813 43469 h j-u 2 22413 25870 26663 f 27278 30815 i 257 22413 25870 26663 g 675 22413 l 1 m 5kb 0 30 bp exon 30 bp exon 1262 bp [gt-ag] intron 71 GenBank accessions 8678 RNA-seq supporting reads 1556 UHR pooled cells 461 Brain 2539 Blood 4081 Neuroblastoma 41 Other (also 1094 Primates bodymap) 137 bp exon 127 bp [gt-ag] intron 91 GenBank accessions 22322 RNA-seq supporting reads 4491 UHR pooled cells 1343 Brain 2631 Blood 13748 Neuroblastoma 109 Other (also 2521 Primates bodymap) 59 bp exon 1124 bp [gt-ag] intron 90 GenBank accessions 25780 RNA-seq supporting reads 4955 UHR pooled cells 1378 Brain 4376 Blood 14974 Neuroblastoma 97 Other (also 3072 Primates bodymap) 132 bp exon 440 bp [gt-ag] intron 83 GenBank accessions 26580 RNA-seq supporting reads 5197 UHR pooled cells 1566 Brain 3898 Blood 15764 Neuroblastoma 155 Other (also 2810 Primates bodymap) 242 bp exon 9026 bp [gt-ag] intron 32 GenBank accessions 29030 RNA-seq supporting reads 5830 UHR pooled cells 1518 Brain 3691 Blood 17863 Neuroblastoma 128 Other (also 2279 Primates bodymap) 202 bp exon 7254 bp [gt-ag] intron 13 GenBank accessions 28352 RNA-seq supporting reads 5650 UHR pooled cells 1685 Brain 3413 Blood 17497 Neuroblastoma 107 Other (also 2722 Primates bodymap) 176 bp exon 936 bp [gt-ag] intron 16 GenBank accessions 32664 RNA-seq supporting reads 6701 UHR pooled cells 1932 Brain 3295 Blood 20593 Neuroblastoma 143 Other (also 2758 Primates bodymap) 72 bp exon 2464 bp [gt-ag] intron 18 GenBank accessions 30792 RNA-seq supporting reads 6350 UHR pooled cells 1774 Brain 3516 Blood 19013 Neuroblastoma 139 Other (also 3156 Primates bodymap) 97 bp exon 3095 bp [gt-ag] intron 16 GenBank accessions 27262 RNA-seq supporting reads 5809 UHR pooled cells 1610 Brain 2306 Blood 17416 Neuroblastoma 121 Other (also 2832 Primates bodymap) 126 bp exon 2792 bp [gt-ag] intron 14 GenBank accessions 30801 RNA-seq supporting reads 6563 UHR pooled cells 1654 Brain 3002 Blood 19448 Neuroblastoma 134 Other (also 3042 Primates bodymap) 98 bp exon 1572 bp [gt-ag] intron 22 GenBank accessions 43447 RNA-seq supporting reads 9145 UHR pooled cells 2456 Brain 3491 Blood 28137 Neuroblastoma 218 Other (also 3520 Primates bodymap) 115 bp exon 95 bp [gt-ag] intron 25 GenBank accessions 39593 RNA-seq supporting reads 8530 UHR pooled cells 2483 Brain 2179 Blood 26184 Neuroblastoma 217 Other (also 3335 Primates bodymap) 98 bp exon 3158 bp [gt-ag] intron 29 GenBank accessions 32677 RNA-seq supporting reads 7199 UHR pooled cells 2110 Brain 2013 Blood 21196 Neuroblastoma 159 Other (also 2073 Primates bodymap) 74 bp exon 3894 bp [gt-ag] intron 28 GenBank accessions 33512 RNA-seq supporting reads 7258 UHR pooled cells 2086 Brain 2705 Blood 21286 Neuroblastoma 177 Other (also 2597 Primates bodymap) 573 bp exon 573 bp exon 135 bp [gc-ag] fuzzy intron 1 GenBank accession 15 RNA-seq supporting reads 2 UHR pooled cells 3 Brain 2 Blood 8 Neuroblastoma (also 229 Primates bodymap) 2 accessions capped 5' end, 1 accession 1084 bp exon 125 bp exon 125 bp exon 72 bp uORF 125 bp exon 1262 bp [gt-ag] intron 71 GenBank accessions 8678 RNA-seq supporting reads 1556 UHR pooled cells 461 Brain 2539 Blood 4081 Neuroblastoma 41 Other (also 1094 Primates bodymap) 72 bp uORF 137 bp exon 137 bp exon 127 bp [gt-ag] intron 91 GenBank accessions 22322 RNA-seq supporting reads 4491 UHR pooled cells 1343 Brain 2631 Blood 13748 Neuroblastoma 109 Other (also 2521 Primates bodymap) 59 bp exon 59 bp exon 1124 bp [gt-ag] intron 90 GenBank accessions 25780 RNA-seq supporting reads 4955 UHR pooled cells 1378 Brain 4376 Blood 14974 Neuroblastoma 97 Other (also 3072 Primates bodymap) 132 bp exon 132 bp exon 440 bp [gt-ag] intron 83 GenBank accessions 26580 RNA-seq supporting reads 5197 UHR pooled cells 1566 Brain 3898 Blood 15764 Neuroblastoma 155 Other (also 2810 Primates bodymap) 242 bp exon 242 bp exon 9026 bp [gt-ag] intron 32 GenBank accessions 29030 RNA-seq supporting reads 5830 UHR pooled cells 1518 Brain 3691 Blood 17863 Neuroblastoma 128 Other (also 2279 Primates bodymap) 202 bp exon 202 bp exon 7254 bp [gt-ag] intron 13 GenBank accessions 28352 RNA-seq supporting reads 5650 UHR pooled cells 1685 Brain 3413 Blood 17497 Neuroblastoma 107 Other (also 2722 Primates bodymap) 176 bp exon 176 bp exon 936 bp [gt-ag] intron 16 GenBank accessions 32664 RNA-seq supporting reads 6701 UHR pooled cells 1932 Brain 3295 Blood 20593 Neuroblastoma 143 Other (also 2758 Primates bodymap) 72 bp exon 72 bp exon 2464 bp [gt-ag] intron 18 GenBank accessions 30792 RNA-seq supporting reads 6350 UHR pooled cells 1774 Brain 3516 Blood 19013 Neuroblastoma 139 Other (also 3156 Primates bodymap) 97 bp exon 97 bp exon 3095 bp [gt-ag] intron 16 GenBank accessions 27262 RNA-seq supporting reads 5809 UHR pooled cells 1610 Brain 2306 Blood 17416 Neuroblastoma 121 Other (also 2832 Primates bodymap) 126 bp exon 126 bp exon 2792 bp [gt-ag] intron 14 GenBank accessions 30801 RNA-seq supporting reads 6563 UHR pooled cells 1654 Brain 3002 Blood 19448 Neuroblastoma 134 Other (also 3042 Primates bodymap) 98 bp exon 98 bp exon 1572 bp [gt-ag] intron 22 GenBank accessions 43447 RNA-seq supporting reads 9145 UHR pooled cells 2456 Brain 3491 Blood 28137 Neuroblastoma 218 Other (also 3520 Primates bodymap) 115 bp exon 115 bp exon 95 bp [gt-ag] intron 25 GenBank accessions 39593 RNA-seq supporting reads 8530 UHR pooled cells 2483 Brain 2179 Blood 26184 Neuroblastoma 217 Other (also 3335 Primates bodymap) 98 bp exon 98 bp exon 3158 bp [gt-ag] intron 29 GenBank accessions 32677 RNA-seq supporting reads 7199 UHR pooled cells 2110 Brain 2013 Blood 21196 Neuroblastoma 159 Other (also 2073 Primates bodymap) 74 bp exon 74 bp exon 3894 bp [gt-ag] intron 28 GenBank accessions 33512 RNA-seq supporting reads 7258 UHR pooled cells 2086 Brain 2705 Blood 21286 Neuroblastoma 177 Other (also 2597 Primates bodymap) 1803 bp exon 1803 bp exon 184 accessions, NM_032842.3 some from pnet (seen 23 times) testis (15), breast (11) leukopheresis (9), brain (8) capped 5' end, 37 accessions Validated 3' end, 2 accessions Validated 3' end, 1 accession Validated 3' end, 12 accessions 1803 bp exon 30 bp exon 30 bp exon 1262 bp [gt-ag] intron 71 GenBank accessions 8678 RNA-seq supporting reads 1556 UHR pooled cells 461 Brain 2539 Blood 4081 Neuroblastoma 41 Other (also 1094 Primates bodymap) 137 bp exon 127 bp [gt-ag] intron 91 GenBank accessions 22322 RNA-seq supporting reads 4491 UHR pooled cells 1343 Brain 2631 Blood 13748 Neuroblastoma 109 Other (also 2521 Primates bodymap) 59 bp exon 1124 bp [gt-ag] intron 90 GenBank accessions 25780 RNA-seq supporting reads 4955 UHR pooled cells 1378 Brain 4376 Blood 14974 Neuroblastoma 97 Other (also 3072 Primates bodymap) 132 bp exon 440 bp [gt-ag] intron 83 GenBank accessions 26580 RNA-seq supporting reads 5197 UHR pooled cells 1566 Brain 3898 Blood 15764 Neuroblastoma 155 Other (also 2810 Primates bodymap) 242 bp exon 9026 bp [gt-ag] intron 32 GenBank accessions 29030 RNA-seq supporting reads 5830 UHR pooled cells 1518 Brain 3691 Blood 17863 Neuroblastoma 128 Other (also 2279 Primates bodymap) 202 bp exon 7254 bp [gt-ag] intron 13 GenBank accessions 28352 RNA-seq supporting reads 5650 UHR pooled cells 1685 Brain 3413 Blood 17497 Neuroblastoma 107 Other (also 2722 Primates bodymap) 176 bp exon 936 bp [gt-ag] intron 16 GenBank accessions 32664 RNA-seq supporting reads 6701 UHR pooled cells 1932 Brain 3295 Blood 20593 Neuroblastoma 143 Other (also 2758 Primates bodymap) 72 bp exon 2464 bp [gt-ag] intron 18 GenBank accessions 30792 RNA-seq supporting reads 6350 UHR pooled cells 1774 Brain 3516 Blood 19013 Neuroblastoma 139 Other (also 3156 Primates bodymap) 97 bp exon 6013 bp [gt-ag] intron 5 GenBank accessions 2527 RNA-seq supporting reads 545 UHR pooled cells 133 Brain 234 Blood 1608 Neuroblastoma 7 Other (also 84 Primates bodymap) 98 bp exon 1572 bp [gt-ag] intron 22 GenBank accessions 43447 RNA-seq supporting reads 9145 UHR pooled cells 2456 Brain 3491 Blood 28137 Neuroblastoma 218 Other (also 3520 Primates bodymap) 115 bp exon 95 bp [gt-ag] intron 25 GenBank accessions 39593 RNA-seq supporting reads 8530 UHR pooled cells 2483 Brain 2179 Blood 26184 Neuroblastoma 217 Other (also 3335 Primates bodymap) 98 bp exon 3158 bp [gt-ag] intron 29 GenBank accessions 32677 RNA-seq supporting reads 7199 UHR pooled cells 2110 Brain 2013 Blood 21196 Neuroblastoma 159 Other (also 2073 Primates bodymap) 74 bp exon 3894 bp [gt-ag] intron 28 GenBank accessions 33512 RNA-seq supporting reads 7258 UHR pooled cells 2086 Brain 2705 Blood 21286 Neuroblastoma 177 Other (also 2597 Primates bodymap) 419 bp exon 5 accessions, some from brain hypothalamus (seen once) 419 bp exon 30 bp exon 30 bp exon 1262 bp [gt-ag] intron 71 GenBank accessions 8678 RNA-seq supporting reads 1556 UHR pooled cells 461 Brain 2539 Blood 4081 Neuroblastoma 41 Other (also 1094 Primates bodymap) 137 bp exon 127 bp [gt-ag] intron 91 GenBank accessions 22322 RNA-seq supporting reads 4491 UHR pooled cells 1343 Brain 2631 Blood 13748 Neuroblastoma 109 Other (also 2521 Primates bodymap) 59 bp exon 1124 bp [gt-ag] intron 90 GenBank accessions 25780 RNA-seq supporting reads 4955 UHR pooled cells 1378 Brain 4376 Blood 14974 Neuroblastoma 97 Other (also 3072 Primates bodymap) 132 bp exon 440 bp [gt-ag] intron 83 GenBank accessions 26580 RNA-seq supporting reads 5197 UHR pooled cells 1566 Brain 3898 Blood 15764 Neuroblastoma 155 Other (also 2810 Primates bodymap) 454 bp exon 1 accession capped 5' end, 1 accession 454 bp exon 678 bp exon 678 bp exon 2 accessions, some from breast carcinoma (seen once) head neck (once) 678 bp exon 32 bp exon 32 bp exon 760 bp [gt-ag] intron 1 GenBank accession 102 bp exon 2766 bp [gt-ag] intron 1 GenBank accession 137 bp exon 127 bp [gt-ag] intron 91 GenBank accessions 22322 RNA-seq supporting reads 4491 UHR pooled cells 1343 Brain 2631 Blood 13748 Neuroblastoma 109 Other (also 2521 Primates bodymap) 59 bp exon 1124 bp [gt-ag] intron 90 GenBank accessions 25780 RNA-seq supporting reads 4955 UHR pooled cells 1378 Brain 4376 Blood 14974 Neuroblastoma 97 Other (also 3072 Primates bodymap) 132 bp exon 440 bp [gt-ag] intron 83 GenBank accessions 26580 RNA-seq supporting reads 5197 UHR pooled cells 1566 Brain 3898 Blood 15764 Neuroblastoma 155 Other (also 2810 Primates bodymap) 109 bp exon 1 accession from testis capped 5' end, 1 accession 109 bp exon 62 bp exon 62 bp exon 2464 bp [gt-ag] intron 18 GenBank accessions 30792 RNA-seq supporting reads 6350 UHR pooled cells 1774 Brain 3516 Blood 19013 Neuroblastoma 139 Other (also 3156 Primates bodymap) 97 bp exon 3095 bp [gt-ag] intron 16 GenBank accessions 27262 RNA-seq supporting reads 5809 UHR pooled cells 1610 Brain 2306 Blood 17416 Neuroblastoma 121 Other (also 2832 Primates bodymap) 126 bp exon 2763 bp [gt-ag] intron 1 GenBank accession 1812 RNA-seq supporting reads 217 UHR pooled cells 138 Brain 295 Blood 1150 Neuroblastoma 12 Other (also 92 Primates bodymap) 127 bp exon 127 bp exon 1572 bp [gt-ag] intron 22 GenBank accessions 43447 RNA-seq supporting reads 9145 UHR pooled cells 2456 Brain 3491 Blood 28137 Neuroblastoma 218 Other (also 3520 Primates bodymap) 1 accession from nervous tumor 67 bp exon 1042 bp exon 1042 bp exon 2 accessions, some from bladder (seen once) hypernephroma (once) kidney (once) 1042 bp exon 186 bp exon 186 bp exon 27 bp uORF 186 bp exon 3061 bp [gt-ag] intron 2 GenBank accessions 137 bp exon 137 bp exon 127 bp [gt-ag] intron 91 GenBank accessions 22322 RNA-seq supporting reads 4491 UHR pooled cells 1343 Brain 2631 Blood 13748 Neuroblastoma 109 Other (also 2521 Primates bodymap) 59 bp exon 59 bp exon 1124 bp [gt-ag] intron 90 GenBank accessions 25780 RNA-seq supporting reads 4955 UHR pooled cells 1378 Brain 4376 Blood 14974 Neuroblastoma 97 Other (also 3072 Primates bodymap) 132 bp exon 132 bp exon 440 bp [gt-ag] intron 83 GenBank accessions 26580 RNA-seq supporting reads 5197 UHR pooled cells 1566 Brain 3898 Blood 15764 Neuroblastoma 155 Other (also 2810 Primates bodymap) 126 bp exon 126 bp exon 2 accessions, some from testis (seen 2 times) capped 5' end, 2 accessions 126 bp exon 439 bp exon 439 bp exon 3095 bp [gt-ag] intron 16 GenBank accessions 27262 RNA-seq supporting reads 5809 UHR pooled cells 1610 Brain 2306 Blood 17416 Neuroblastoma 121 Other (also 2832 Primates bodymap) 126 bp exon 2792 bp [gt-ag] intron 14 GenBank accessions 30801 RNA-seq supporting reads 6563 UHR pooled cells 1654 Brain 3002 Blood 19448 Neuroblastoma 134 Other (also 3042 Primates bodymap) 434 bp exon 2 accessions, some from testis (seen once) testis normal (once) 434 bp exon 265 bp exon 265 bp exon 27 bp uORF 265 bp exon 972 bp [gt-ag] intron 4 GenBank accessions 253 RNA-seq supporting reads 24 UHR pooled cells 10 Brain 217 Neuroblastoma 2 Other 137 bp exon 137 bp exon 127 bp [gt-ag] intron 91 GenBank accessions 22322 RNA-seq supporting reads 4491 UHR pooled cells 1343 Brain 2631 Blood 13748 Neuroblastoma 109 Other (also 2521 Primates bodymap) 59 bp exon 59 bp exon 1124 bp [gt-ag] intron 90 GenBank accessions 25780 RNA-seq supporting reads 4955 UHR pooled cells 1378 Brain 4376 Blood 14974 Neuroblastoma 97 Other (also 3072 Primates bodymap) 132 bp exon 132 bp exon 440 bp [gt-ag] intron 83 GenBank accessions 26580 RNA-seq supporting reads 5197 UHR pooled cells 1566 Brain 3898 Blood 15764 Neuroblastoma 155 Other (also 2810 Primates bodymap) 110 bp exon 4 accessions, some from amygdala (seen once) lymph (once) capped 5' end, 2 accessions 110 bp exon 415 bp exon 856 bp [gt-ag] intron 2 GenBank accessions 673 RNA-seq supporting reads 151 UHR pooled cells 35 Brain 5 Blood 482 Neuroblastoma (also 6 Primates bodymap) 137 bp exon 127 bp [gt-ag] intron 91 GenBank accessions 22322 RNA-seq supporting reads 4491 UHR pooled cells 1343 Brain 2631 Blood 13748 Neuroblastoma 109 Other (also 2521 Primates bodymap) 32 bp exon 2 accessions, some from cerebellum (seen once) testis (once) capped 5' end, 2 accessions 32 bp exon 152 bp exon 152 bp exon 152 bp exon 1113 bp [gt-ag] intron 1 GenBank accession 1 accession from testis 197 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.
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Sequences: click on the numbers to get the DNA back to top
mRNA variant mRNA matching the genome Best predicted protein 5' UTR 3' UTR uORF Upstream sequence Transcription
unit
pre-mRNA		 Downstream sequence
aAug10 3315 bp 561 aa 27 bp 1602 bp 2kb including Promoter 40689 bp 1kb
bAug10 3556 bp 561 aa 122 bp 1748 bp 69 bp 2kb including Promoter 40795 bp 1kb
cAug10 1951 bp 519 aa 27 bp 364 bp 2kb probably including promoter 39316 bp 1kb
dAug10 812 bp 203 aa 27 bp 173 bp 2kb including Promoter 3765 bp 1kb
eAug10 571 bp 189 aa 2kb including Promoter 5788 bp 1kb
fAug10 640 bp 151 aa 186 bp 24 bp 2kb including Promoter 5392 bp 1kb
gAug10 703 bp 146 aa 265 bp 24 bp 2kb including Promoter 3366 bp 1kb
hAug10 479 bp 111 aa 141 bp 2kb 10373 bp 1kb
iAug10 999 bp 90 aa 402 bp 324 bp 2kb possibly including promoter 6886 bp 1kb
jAug10-unspliced 1042 bp 42 aa 99 bp 814 bp 2kb 1042 bp 1kb
kAug10-unspliced 678 bp 48 aa 270 bp 261 bp 2kb 678 bp 1kb
lAug10 584 bp 56 aa 415 bp 2kb including Promoter 1567 bp 1kb
mAug10 349 bp 36 aa 237 bp 2kb 1462 bp 1kb

Gene neighbors and Navigator on chromosome 7q32.2 back to top
R KLHDC10 C R P C R R C7orf45 C R P CPA2 D C R P CPA4 D C R P CPA5 D C R P CPA1 D C R P MEST D C I R P R D P MIR183 D C I R P UBE2H C I R P ZC3HC1 C C R P TMEM209 R R C R P TSGA14 D R P MESTIT1 C C R TSGA13andCOPG2 100kb 0 NRF1, 144 accessions, 10 variants feybleeby, 3 accessions 2 variants KLHDC10, 365 accessions 7 variants jusnybu, 1 accession blabler, 6 accessions 3 variants sihuya, 1 accession C7orf45, 18 accessions CPA2, 140 accessions, 4 variants CPA4, 244 accessions, 10 variants CPA5, 67 accessions, 12 variants CPA1, 332 accessions, 12 variants MEST, 418 accessions, 18 variants borsnybu, 1 accession skaju, 1 accession sukemu, 2 accessions, 2 variants beyparby, 1 accession boysnybu, 1 accession snorblawby, 1 accession chubler, 3 accessions roflawbu, 1 accession lokee, 16 accessions, 2 variants spyblawby, 6 accessions rarflawbu, 1 accession mohera, 11 accessions darparby, 2 accessions spoblawby, 5 accessions stawsluby, 1 accession royflawbu, 1 accession spawblawby, 3 accessions cheybler, 3 accessions dorparby, 1 accession stersluby, 1 accession sperblawby, 1 accession speyblawby, 1 accession sporblawby, 1 accession syflawbu, 1 accession stublawby, 1 accession stoblawby, 2 accessions storsluby, 1 accession starblawby, 1 accession swyblawby, 4 accessions zeytoybo, 3 accessions swoblawby, 1 accession deysnybu, 12 accessions zortoybo, 1 accession suflawbu, 1 accession bawbleeby, 1 accession borbleeby, 1 accession boybleeby, 1 accession sarflawbu, 1 accession sekemu, 2 accessions, 2 variants sawflawbu, 1 accession skoyzeeby, 8 accessions dobleeby, 1 accession dawbleeby, 1 accession farsnybu, 3 accessions deebleeby, 4 accessions mukee, 13 accessions sheybler, 1 accession fersnybu, 1 accession fobleeby, 4 accessions markee, 1 accession fawbleeby, 1 accession toflawbu, 1 accession waflawbu, 1 accession gableeby, 1 accession tosloby, 1 accession gobleeby, 1 accession gawsnybu, 1 accession garbleeby, 1 accession geesnybu, 1 accession geebleeby, 1 accession geysnybu, 1 accession gawparby, 1 accession tateya, 1 accession korparby, 1 accession geybleeby, 1 accession gorbleeby, 8 accessions goysnybu, 2 accessions jasnybu, 1 accession zaflawbu, 1 accession josnybu, 2 accessions jableeby, 1 accession jeesnybu, 2 accessions jybleeby, 2 accessions sokemu, 2 accessions, 2 variants jobleeby, 1 accession jersnybu, 1 accession slazeeby, 5 accessions serparby, 1 accession kybleeby, 1 accession kobleeby, 1 accession vawparby, 1 accession kusnybu, 3 accessions titeya, 1 accession tuteya, 1 accession kosnybu, 1 accession teteya, 1 accession karsnybu, 1 accession kawsnybu, 2 accessions keesnybu, 1 accession lableeby, 1 accession sateya, 1 accession lobleeby, 2 accessions korsnybu, 3 accessions cheeflawbu, 1 accession lerbleeby, 2 accessions leybleeby, 1 accession lasnybu, 1 accession siteya, 1 accession lusnybu, 1 accession shaflawbu, 1 accession blosloby, 1 accession warparby, 3 accessions mubleeby, 1 accession mobleeby, 1 accession mawbleeby, 1 accession sheeflawbu, 1 accession bawgoy, 37 accessions shoparby, 1 accession florparby, 3 accessions floyparby, 1 accession gloyparby, 1 accession klorparby, 1 accession morbleeby, 1 accession perflawbu, 1 accession snarblawby, 1 accession sleesluby, 1 accession sneeblawby, 1 accession skeyzeeby, 2 accessions porflawbu, 1 accession sneyblawby, 1 accession sworpoby, 1 accession chawbler, 2 accessions reeflawbu, 1 accession noteya, 1 accession sparblawby, 1 accession dysnybu, 1 accession chorbler, 1 accession spoyblawby, 2 accessions stablawby, 2 accessions styblawby, 4 accessions dusnybu, 1 accession stawblawby, 5 accessions steeblawby, 5 accessions dosnybu, 2 accessions steyblawby, 1 accession darsnybu, 1 accession stoyblawby, 1 accession skorzeeby, 2 accessions dawsnybu, 1 accession swablawby, 2 accessions foparby, 1 accession swarblawby, 2 accessions doysnybu, 5 accessions glorbloyby, 1 accession gloybloyby, 5 accessions fasnybu, 1 accession swawblawby, 2 accessions swerblawby, 2 accessions sharbler, 2 accessions sweyblawby, 1 accession sworblawby, 4 accessions shawbler, 5 accessions swoyblawby, 1 accession feeparby, 1 accession sheebler, 7 accessions bobleeby, 1 accession ferparby, 2 accessions barbleeby, 2 accessions beebleeby, 2 accessions beybleeby, 1 accession dableeby, 1 accession fosnybu, 1 accession gaparby, 1 accession darbleeby, 1 accession derbleeby, 1 accession deybleeby, 2 accessions gusloby, 1 accession sorflawbu, 1 accession tuflawbu, 1 accession doybleeby, 2 accessions fybleeby, 1 accession feesnybu, 1 accession gorsloby, 5 accessions fubleeby, 1 accession farbleeby, 1 accession peesloby, 1 accession ferbleeby, 5 accessions guparby, 1 accession foysnybu, 1 accession forbleeby, 1 accession rorsloby, 2 accessions woyflawbu, 1 accession gusnybu, 2 accessions gosnybu, 1 accession gawbleeby, 2 accessions gerbleeby, 1 accession jawsnybu, 1 accession jarbleeby, 1 accession jawbleeby, 1 accession raparby, 1 accession jeysnybu, 1 accession jorsnybu, 1 accession soparby, 2 accessions jorbleeby, 1 accession joybleeby, 1 accession joysnybu, 3 accessions zarflawbu, 1 accession kableeby, 1 accession kubleeby, 1 accession kawbleeby, 1 accession wersloby, 11 accessions toteya, 1 accession koybleeby, 1 accession lybleeby, 1 accession kersnybu, 5 accessions chuflawbu, 1 accession meykee, 3 accessions chawflawbu, 1 accession zarsloby, 1 accession larbleeby, 1 accession koysnybu, 1 accession blarbler, 2 accessions lysnybu, 1 accession nonare, 2 accessions lorbleeby, 1 accession blawbler, 1 accession shoflawbu, 1 accession marbleeby, 3 accessions blerbler, 16 accessions gleeparby, 3 accessions klaparby, 1 accession lawkee, 4 accessions, 4 variants MIR183, 2 accessions UBE2H, 573 accessions 13 variants ZC3HC1, 392 accessions 19 variants chotoybo, 1 accession TMEM209, 212 accessions 13 variants blobler, 3 accessions 2 variants nenare, 3 accessions TSGA14, 367 accessions 20 variants MESTIT1, 18 accessions kakemu, 2 accessions totemu, 67 accessions 4 variants TSGA13andCOPG2, 132 accessions 10 variants ZOOM IN                D:disease,C:conserved,I:interactions,R:regulation,P:publications         Read more...
Annotated mRNA diagrams back to top
Bibliography:               2 articles in PubMed back to top
? Gene Summary Gene on genome mRNA:.a, .b, .c, .d, .e, .f, .g, .h, .i, .j-u, .k-u, .l, .m Alternative mRNAs features, proteins, introns, exons, sequences Expression Tissue Function, regulation, related genes C

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'.

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