MmuINT1010718 @ mm10
Intron Retention
Gene
ENSMUSG00000026867 | Gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:MGI Symbol;Acc:MGI:1913941]
Coordinates
chr2:34715205-34717382:-
Coord C1 exon
chr2:34717316-34717382
Coord A exon
chr2:34715331-34717315
Coord C2 exon
chr2:34715205-34715330
Length
1985 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAAC
5' ss Score
5.88
3' ss Seq
CAGGATAAACATTTCTCCAGGTC
3' ss Score
4.46
Exon sequences
Seq C1 exon
GTTCTAAACATGCAGCTTTCGGATGGAGGACAAGGAGATGTCCCTGTTGATGAAAACAAACTCCACG
Seq A exon
GTAAACCTGATAAAACCTTGCGCTTTTCCCTCTGCAGTGATAATCTGGAAGGCATATCTGAAGGTGAAGGGTTACTTCATTCAGGGAGTGTGTGATTGAAGTTGTTCTGTGTTCTTTAAAGGAGCCTTATAAATTATAGTTAAGCCACCCATGCCTCTCACTAAGGAGAATAATGAAATTTCCTCTAATGAGCTTTAACATGACTATAAGATTGTTTCCTGAATAAAATTAAGATTGCAAGTGGCTGTTGGTCCTATAAAATGACCAAACATGTCAATGTTAAATGAGTAACAGCAAGTGTGGTTCTCAGTCTTGGTGTCGGCACAAGCTTATAGCGCTCCTTTAGAGGGATATAGTGCATGTGTAACTGCGGAGAGTGGATGCTGGCATTGCAGGATGCTGTGTACACGTCTTTACTGTTCTGTGTTCCTTTATCCACACACTCACACATGCCTTTATGAATCAGGTCACTGTGGAATAAAAAAGTCAGGTGAGGGTGTAGTTGGTAGAGTGTTTGCCTGGCATCCCTAGACTTAATCTTCAGTAGTGGTGGGGGGAAAAAAAAAGGAAACTCTTAAACCAGATTGTGAAGTTAAGAGTTTGTCATTCCATATGTTAGGGCAGTTCATTTTATGAAAAAAGTTCAAGTTTACTAACATTTAAAAGGAGACATAAATATCCTCTTTAACCTTTCAGAAAATCGCTGATATGTTCAATCTAGAAAATGTGGAAAAGAAATAAGCTTACCTGTAATTTCACTGTTCTCTTAAAAGTTAATGTTTGATTATTTAGAGCAAAATCAAGTTTATGATGTTTGTAACCCTTTTATGTTTCATTAACATTCCCTTTGTATTTTGTGTTTTTAAATAACATGCTTTTTTTTCCTTTCATTATTTTGAGACAAGGTGTTATTATTGTCCCTGGCTGACCTGGAATTCACTAAGTAGACCAGACTGAACTTGCCCTTAACAGAGTTTCTCCTACCTCTGGTTCCCAAGTGCTAGGATTAAAGATGTGGTCACCATGCCTGGCAATTCATCACCTGGGCAACAGGCAGGTTCATCTCTGGGTTGGAGGCCAGCTTGTCTACAGAGTGAGTTCCAGGCAGCCAAGGTTACACAGAGAAGCACTGTCTTGAAAAAAACAAAACCAACAAGCAAAAGAATTGTTTGGTTTGCTTGTCCTACCAATGGCTCGCAGATGGCATAGCTTTTAAACTGGCCATTAAACCTTAACCTTGACTGCGTTCATCTGGTTGGACATATGGCCCTTGGCCCTAATGATTCGGTCATTTGCAGAACATTTCCAAGGAACGTCCAGGTCCATGAACCTGCTGGCATTGTTCTGCATGTCCAGGCACTTCCTGCTTACTCTTTACTGCACACTAGCACAGAAAGTACTTCTTTTTTTTTTTTTTTTTTAAAGATTTATTTATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGCATCAGATCTTGTTATGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCGGACCTTTGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCAAAAGTACTTCTTTTTTAAGTATTATAGTAGCTCTTCAACAAGCAACCTTAGGTTATTTTTCTTATTAGTTTTTTAAAGATAAATTTCTAGAGGCAGACCTGTTGGCTCAAAGGCATTTATATTTTTAAGGAAATAAATAAAATATTAAAAGCATCTTAAATCAGGTATGATGGCACATATCTGTAATCGCAGGGTTCACAATGCTAAGGTAGAAGACTTGAAGAGTGTAAGATTAGTCTGGGCTATATAGTAAGGCCTTGTTTCAAAACAGAACAGAACAAAACCAGAAGAGAAATAAATACTATTTTCATGGCATGAAATATTACATAGTGACTTATGAATTTTTTAAGAAGATTGCTGACAGGATAAACATTTCTCCAG
Seq C2 exon
GTCCTTCCAATCGCTCCAATTCGGTGTCTTCTCTCGACCTGGAGGGAGAGTCTGTATCTGAACTTGGGGCAGGACCTTCTGGGAGTAACGGAGTTGAAGCACTGCAGCTGTTAGAGCACGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026867:ENSMUST00000102800:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.996 A=NA C2=0.998
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF153241=TALPID3=FE(19.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTAAACATGCAGCTTTCGGA
R:
GCTCTAACAGCTGCAGTGCTT
Band lengths:
182-2167
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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