MmuINT0173986 @ mm10
Intron Retention
Gene
ENSMUSG00000031600 | Vps37a
Description
vacuolar protein sorting 37A [Source:MGI Symbol;Acc:MGI:1261835]
Coordinates
chr8:40528318-40529209:+
Coord C1 exon
chr8:40528318-40528432
Coord A exon
chr8:40528433-40529108
Coord C2 exon
chr8:40529109-40529209
Length
676 bp
Sequences
Splice sites
5' ss Seq
AATGTACGT
5' ss Score
6.58
3' ss Seq
TGTATTACTGTTACTTTCAGTTT
3' ss Score
7
Exon sequences
Seq C1 exon
ATTACTTCCTCCACAGTTTCCTCAGGAAAAGCCAGTGATTAGTGTTTATCCGCCAATCAGACATCATTTAATGGATAGTCAAGGATTATATGTTACCTCTCCATTAGTAAGCAAT
Seq A exon
GTACGTATGTGCTATGGTTTATTTCAGAGTAATATAATGTATTCATTACATTTTTATTATTCTTGAAATCTGAAATGTATAGACATTTTCATCTTGAAATTAGTAAAGTTTCCCTGGAGAATACTGTTTACTTGAAGTTTTTGGATACAATGTGGTTGATTATGTGACAAGGTAAAAACTTAATATACCCCAATTATTTACCTTTGGACAATCAAATTATTGTGAAGTGTGGGAATATTTTAGCCTCATTATTGCTTGAATAGACTGTTAACCTGATATTTATAGTACTGATTGTATTAGAAATTGTTGTAAGTCATGTTGACACAGTGCTCTTGTTTTTCTGTTTATTTTTTCCTATTTTATGTGTATGAGTGTTGTGACTCACATGTATGAAATGCGTGCATGCACCACATGCATGCAGGGCCCATGGAAAGCAGAGGTCATGTAGAACTGCACTTATGAATGTGAGCTGCCATGAAGGTGTGAGGAACTGAACCTGGGCCTCTGCAAGGACATGAAGTGCTCTGATCCACTGAGCCCTCACTTCAGCCCCCCATTTCTATTTATTCCTGCCTGCAAACATTGGTTAAGATTTAGAATGACATTTAGTCACAAGAAATTTTGTTACCGCTTTTTGGAGAGGGTTTCTATCATTATGTATTACTGTTACTTTCAG
Seq C2 exon
TTTACAATGCACTCAGATCTTGGAAAAATTATTCAAAGTCTTTTGGATGAGTTCTGGAAGAATCCTCCAGTTTTAGCTCCTACTTCAACAACATTTCCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031600:ENSMUST00000098817:3
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=FE(45.8=100)
A:
NA
C2:
PF057438=UEV=PD(27.7=67.6)
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:
ATTACTTCCTCCACAGTTTCCTCA
R:
TGGAAATGTTGTTGAAGTAGGAGCT
Band lengths:
214-890
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