Mus musculus gene Fbl, encoding fibrillarin.
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SUMMARY back to top
RefSeq annotates one representative transcript (NM included in AceView variant.b), but Mus musculus 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 6 spliced variants.

AceView synopsis, each blue text links to tables and details
Expression: According to AceView, this gene is expressed at high level, 2.4 times the average gene in this release. The sequence of this gene is defined by 247 GenBank accessions from 245 cDNA clones, some from mammary (seen 15 times), whole body (13), embryo (11), adult brain (8), brain (8), lateral wall of lateral ventricle (8), tumor, biopsy sample (8) and 57 other tissues. We annotate structural defects or features in 9 cDNA clones.
Alternative mRNA variants and regulation: The gene contains 12 distinct introns (11 gt-ag, 1 other). Transcription produces 8 different mRNAs, 6 alternatively spliced variants and 2 unspliced forms. There are 3 non overlapping alternative last exons and 2 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 8 cassette exons, overlapping exons with different boundaries, splicing versus retention of 2 introns.
Note that mRNA .dSep07 was found in vivo, although it is a predicted target of nonsense mediated mRNA decay (NMD).
Function: There are 19 articles specifically referring to this gene in PubMed. Functionally, the gene has been tested for association to diseases (embryogenesis phenotype; lethality-embryonic/perinatal) and proposed to participate in processes (rRNA processing, snoRNA metabolic process). Proteins are expected to have molecular functions (snoRNA binding, methyltransferase activity) and to localize in various compartments (Cajal body, nucleolus, nucleus, ribonucleoprotein complex).
Please see the Jackson Laboratory Mouse Genome Database/Informatics site MGI_95486 for in depth functional annotation of this gene.
Protein coding potential: The 6 spliced and 2 unspliced mRNAs putatively encode good proteins, altogether 8 different isoforms (5 complete, 2 COOH complete, 1 partial), some containing fibrillarin domain [Pfam].

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 Fbl maps on chromosome 7. In AceView, it covers 9.62 kb, from 28954686 to 28964301 (NCBI 37a, Aug 2007), on the direct strand.
Links to: manual annotations from MGI_95486, the SNP view, gene overviews from Entrez Gene 14113, expression data from UniGene, molecular and other annotations from UCSC.
Other names: The gene is also known as Fbl, FIB, FLRN, RNU3IP1 or AL022665, LOC14113.
Closest AceView homologs in other species ?
The closest human gene, according to BlastP, is the AceView gene FBL (e=8 10-15).
The closest C.elegans gene, according to BlastP, is the AceView/WormGene fib-1 (e=3 10-10), which may contain interesting functional annotation.
The closest A.thaliana genes, according to BlastP, are the AceView genes FIB1 (e=9 10-11), FIB2 (e=2 10-10), which may contain interesting functional annotation
          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 Fbl 5' 3' encoded on plus strand of chromosome 7 from 28,954,686 to 28,964,301 a e b [NM] c d f h-u g-u 1 2kb 0 152 bp exon 152 bp exon 4685 bp [gt-ag] intron 113 GenBank accessions 183 bp exon 98 bp [gt-ag] intron 120 GenBank accessions 108 bp exon 91 bp [gt-ag] intron 129 GenBank accessions 95 bp exon 776 bp [gt-ag] intron 114 GenBank accessions 171 bp exon 1117 bp [gt-ag] intron 107 GenBank accessions 980 bp exon 86 accessions, some from mammary (seen 10 times) whole body (10), adult brain (5) brain (5), lateral wall of lateral ventricle (5) 980 bp exon 131 bp exon 131 bp exon 580 bp [gt-ag] intron 75 GenBank accessions 146 bp exon 87 bp [gt-ag] intron 73 GenBank accessions 137 bp exon 1 accession from egg 137 bp exon 109 bp exon 109 bp exon 4685 bp [gt-ag] intron 113 GenBank accessions 183 bp exon 98 bp [gt-ag] intron 120 GenBank accessions 108 bp exon 91 bp [gt-ag] intron 129 GenBank accessions 95 bp exon 776 bp [gt-ag] intron 114 GenBank accessions 171 bp exon 1117 bp [gt-ag] intron 107 GenBank accessions 133 bp exon 929 bp [gt-ag] intron 86 GenBank accessions 113 bp exon 580 bp [gt-ag] intron 75 GenBank accessions 146 bp exon 87 bp [gt-ag] intron 73 GenBank accessions 146 bp exon 144 accessions, NM_007991 some from undifferentiated limb (seen 8 times) embryo (6), testis (5) mammary (4), adult brain (3) Validated 3' end, 10 accessions 146 bp exon 52 bp exon 52 bp exon 4685 bp [gt-ag] intron 113 GenBank accessions 123 bp exon 357 bp [gt-ag] intron 1 GenBank accession 95 bp exon 776 bp [gt-ag] intron 114 GenBank accessions 171 bp exon 1117 bp [gt-ag] intron 107 GenBank accessions 133 bp exon 623 bp [gt-ag] intron 1 GenBank accession 69 bp exon 2 accessions, some from urinary bladder (seen once) 69 bp exon 49 bp exon 49 bp exon 4685 bp [gt-ag] intron 113 GenBank accessions 183 bp exon 98 bp [gt-ag] intron 120 GenBank accessions 294 bp exon 294 bp exon 776 bp [gt-ag] intron 114 GenBank accessions 2 accessions, some from whole embryo including extraembryonictissues at 7.5-days postcoitum (seen once) 352 bp exon 86 bp exon 86 bp exon 4685 bp [gt-ag] intron 113 GenBank accessions 183 bp exon 85 bp [gt-ag] intron 1 GenBank accession 13 bp exon 3434 bp [gt-tc] fuzzy intron 1 GenBank accession 64 bp exon 1 accession from egg 64 bp exon 2410 bp exon 2410 bp exon 3 accessions, some from wolffian duct includes surrounding region (seen 3 times) 2410 bp exon 340 bp exon 340 bp exon 1 accession from thymus Validated 3' end, 1 accession 340 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
aSep07 1689 bp 330 aa 142 bp 554 bp 990 bp 2kb possibly including promoter 8456 bp 1kb
bSep07 1204 bp 327 aa 99 bp 121 bp 981 bp 2kb probably including promoter 9567 bp 1kb
cSep07 643 bp 200 aa 42 bp 600 bp 2kb probably including promoter 8201 bp 1kb
dSep07 878 bp 102 aa 39 bp 530 bp 306 bp 2kb probably including promoter 6437 bp 1kb
eSep07 414 bp 99 aa 112 bp 297 bp 2kb 1081 bp 1kb
fSep07 346 bp 84 aa 76 bp 15 bp 252 bp 2kb probably including promoter 8550 bp 1kb
gSep07-unspliced 340 bp 38 aa 222 bp 114 bp 2kb 340 bp 1kb
hSep07-unspliced 2410 bp 99 aa 214 bp 1896 bp 2kb probably including promoter 2410 bp 1kb

Gene neighbors and Navigator on chromosome 7 back to top
C R P Zfp60 C R P G C R C 4933426I21Rik C R C Zfp59 C P Zfp607 C R R R R R R R R R C Fcgbp C R 9530053A07Rik C R C G C R Fbl D C R P Dyrk1b C R P C Eid2 C P G C R Rps16 C R P R Paf1 C R Gmfg C R P Lrfn1 C R P Il28 C P C Sycn D C P R 1700085B13Rik 1700028B04Rik R G R C C P Prkcz2 C R 1700049G17Rik C C EG668175 C C G C C R Zfp780b C R C130069I09Rik C C D C R P Psmc4 R Fcgbp.1 R C C R P BC089491 D C R P Dll3 C R P Timm50 C R P Supt5h C R P Plekhg2 D C R P Zfp36 C R P Med29 C R P Samd4b C P EG330496 C 1190020J12Rik D C R P Pak4 C R C330005M16Rik 100kb 0 C030039L03Rik, 61 accessions 7 variants lochaw, 1 accession Zfp60, 178 accessions 7 variants LOC100043229, 10 accessions 3 variants TLV_coat.121, 2 accessions 4933426I21Rik, 17 accessions 3 variants zf-C2H2.52, 19 accessions Zfp59, 45 accessions, 2 variants Zfp607, 26 accessions 2 variants tarote, 1 accession kesite, 2 accessions kosite, 1 accession tirote, 9 accessions, 4 variants rasute, 1 accession risute, 2 accessions nachaw, 1 accession resute, 1 accession VWD.0, 11 accessions, 2 variants Fcgbp, 284 accessions 6 variants 9530053A07Rik, 24 accessions 6 variants VWD.4, 1 accession LOC100037259, 184 accessions 5 variants Fbl, 246 accessions, 8 variants Dyrk1b, 36 accessions 3 variants rve.180, 2 accessions Eid2, 42 accessions LOC434156, 47 accessions Rps16, 379 accessions 4 variants terote, 17 accessions Paf1, 276 accessions, 8 variants Gmfg, 96 accessions, 10 variants Lrfn1, 38 accessions, 4 variants Il28, 6 accessions Cytochrom_C.0, 4 accessions Sycn, 171 accessions shychy, 97 accessions 2 variants torote, 6 accessions, 3 variants tesite, 3 accessions koychaw, 1 accession larchaw, 1 accession lawchaw, 1 accession tosite, 1 accession sisite, 1 accession loychaw, 3 accessions sosite, 2 accessions mychaw, 1 accession kisite, 6 accessions mawchaw, 1 accession meechaw, 3 accessions merchaw, 3 accessions wasute, 1 accession turote, 1 accession nychaw, 1 accession nuchaw, 1 accession rusute, 3 accessions narchaw, 1 accession nawchaw, 1 accession chorchy, 2 accessions rosute, 1 accession yasute, 1 accession noychaw, 2 accessions pychaw, 1 accession puchaw, 2 accessions yosute, 7 accessions parchaw, 2 accessions pawchaw, 2 accessions peechaw, 1 accession masute, 67 accessions mosute, 2 accessions rachaw, 1 accession rychaw, 3 accessions ruchaw, 1 accession rawchaw, 1 accession reechaw, 1 accession nesute, 1 accession nosute, 3 accessions tasute, 5 accessions rorchaw, 2 accessions roychaw, 1 accession 1700085B13Rik, 8 accessions suchaw, 1 accession sochaw, 1 accession 1700028B04Rik, 6 accessions sarchaw, 1 accession sawchaw, 3 accessions seechaw, 1 accession tesute, 1 accession tosute, 3 accessions korchaw, 1 accession lachaw, 1 accession lychaw, 1 accession luchaw, 1 accession sasite, 2 accessions leechaw, 3 accessions lerchaw, 2 accessions susite, 2 accessions leychaw, 1 accession lorchaw, 2 accessions machaw, 1 accession sesite, 2 accessions muchaw, 3 accessions mochaw, 4 accessions marchaw, 1 accession meychaw, 1 accession kusite, 1 accession morchaw, 1 accession moychaw, 1 accession nochaw, 3 accessions neechaw, 1 accession nerchaw, 1 accession neychaw, 1 accession pachaw, 2 accessions yusute, 7 accessions pochaw, 5 accessions perchaw, 1 accession misute, 1 accession musute, 1 accession mesute, 1 accession hasute, 1 accession peychaw, 4 accessions porchaw, 1 accession hisute, 23 accessions poychaw, 1 accession husute, 3 accessions hesute, 14 accessions hosute, 1 accession nasute, 25 accessions rochaw, 3 accessions rarchaw, 1 accession nisute, 1 accession nusute, 1 accession rerchaw, 1 accession reychaw, 7 accessions sachaw, 1 accession sychaw, 1 accession tisute, 1 accession choychy, 17 accessions serchaw, 1 accession seychaw, 1 accession tusute, 2 accessions sorchaw, 1 accession sasute, 1 accession soychaw, 3 accessions Map3k10, 79 accessions 7 variants norote, 32 accessions 2 variants LOC100043233, 5 accessions kasite, 1 accession Pkinase.4, 2 accessions Prkcz2, 10 accessions 1700049G17Rik, 51 accessions 4 variants Transposase_22.256, 1 accession EG668175, 6 accessions 2 variants RVT_1.297, 1 accession Gag_p10.41, 2 accessions LOC100043771, 19 accessions Zfp780b, 54 accessions 5 variants C130069I09Rik, 63 accessions 2 variants TLV_coat.122, 1 accession rve.179, 2 accessions Psmc4, 496 accessions 5 variants Fcgbp.1, 2 accessions norchaw, 4 accessions Gag_MA.30, 2 accessions BC089491, 27 accessions 3 variants Dll3, 59 accessions, 3 variants Timm50, 273 accessions 6 variants Supt5h, 452 accessions 15 variants Plekhg2, 209 accessions 13 variants Zfp36, 274 accessions Med29, 85 accessions Samd4b, 120 accessions 4 variants EG330496, 2 accessions 1190020J12Rik, 17 accessions Pak4, 218 accessions, 5 variants C330005M16Rik, 26 accessions 4 variants ZOOM IN                D:disease,C:conserved,I:interactions,R:regulation,P:publications         Read more...
Annotated mRNA diagrams back to top
Bibliography:               19 articles in PubMed back to top
? Gene Summary Gene on genome mRNA:.a, .b, .c, .d, .e, .f, .g-u, .h-u Alternative mRNAs features, proteins, introns, exons, sequences Expression Tissue Function, regulation, related genes DC

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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