MmuINT0173985 @ mm10
Intron Retention
Gene
ENSMUSG00000031600 | Vps37a
Description
vacuolar protein sorting 37A [Source:MGI Symbol;Acc:MGI:1261835]
Coordinates
chr8:40526927-40528432:+
Coord C1 exon
chr8:40526927-40527001
Coord A exon
chr8:40527002-40528317
Coord C2 exon
chr8:40528318-40528432
Length
1316 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
CTCGTGTTATTCCTTTCTAGATT
3' ss Score
9.66
Exon sequences
Seq C1 exon
TATAGCTGAAATACAAAAAGATGTGGAATACAGATTGCCATTCACAGTAAACAACCTGACAATTAACATTAATAT
Seq A exon
GTAAGTAGTGTTGGTTTCTATTTTTATATATTAGGTTTTAATTTTTGCTTTCTATCTTAACAGCCTGACAATATTAGTGTGTGAATAGAATTGTAATTTATACTTCATGTAATAGGAGCTTTTTTGTTTTGTCTTTTAGTTAATATCAGAAATAAGCTGTTTGAGTGAGCTCATTCAAAGAGACTATAACATAACATAGTGCCAAGCTTAGTGAAATAATAACTGCCGTGGCTCATTGCTAACACATGGACATAGGAGGCCTTGTTCAATATTAGTTCTCTGAACAAATTTAAGAATGGATATATAGTGCTGGCAAAAAATAATCAACTTTACAAATATGAGTTATGAGTCTGTACAGTAGCTTATAAATTAGGATAGATTACAGACACATAATAAATGTCAACAAACACTCAGATTAGTTGGCTCCAAAGACCACTTATTGCCTCCTTTACAAAACTATTTTAAAAATCTTTAGTTATTAAAAAAAAACAGACAAAATAAACAAACAAAACTTTTTCTATATAAATGAATTCATCTTATTTCTCTTCTAGTCTCCAGGTAGAGGTAGGTAGGAGAGGTCAACAAAATCGCAGTTTTAGTGTTTTGTTTTTTATAATGCTATCTACAAATAATCTTCTTAGCAATATGTAAACAGAGACATTTAAAAGGAAATATTCTGAGTGTTCAAAATTTGAAAAACAGTTCTTTATTTAATAAACTTCTATTAAAGTGTTTCACAAACTAACTTTGATTTTATAGTACTTGAAACAGTTTGAACTTTTTCACTTTTCTGAATAAGTGCCATAGACACATGCACAAAGGTACACGGGCACGCACAGGCGCGCGCGCACACACACACACACACACACACACACACACACACACACACACACACGTGCACGCGCACACACAGCCAGAGCCATCAGCTAAACAACCAGACGGAGTTTTACAGCATTTACTTGATATAAGGTGTGACCTAATTTCTAGCTGAGATGGTTTTATTCATTAAGTTATACTATCTTTGAAAATTCATTGACATGCTAAACAGACTATTCTATGATACGTGGTTTCTATATTACACATTAAAAAGAATCTATTGTATTGAATTACTATATCTTATTGCCAAAACATAACCTTTTATATATTTTCAATCTGCTCAAATTCTATACTAAGGCACTTCTTACAAAAGAATTAATCCACATAAGTCAATGTGAAAGTTTAATAAATTGCTTTTAAATAACTTGGTTTTAGGACTATGGTCACATGTTGTACTTTCTTTTCATTTGTTTGTGTATTCTCGTGTTATTCCTTTCTAG
Seq C2 exon
ATTACTTCCTCCACAGTTTCCTCAGGAAAAGCCAGTGATTAGTGTTTATCCGCCAATCAGACATCATTTAATGGATAGTCAAGGATTATATGTTACCTCTCCATTAGTAAGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031600:ENSMUST00000098817:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057438=UEV=PU(24.1=76.9)
A:
NA
C2:
PF057438=UEV=FE(45.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGAAATACAAAAAGATGTGGA
R:
TTGCTTACTAATGGAGAGGTAACA
Band lengths:
186-1502
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types