MmuINT0130776 @ mm10
Intron Retention
Gene
ENSMUSG00000035437 | Rabgap1
Description
RAB GTPase activating protein 1 [Source:MGI Symbol;Acc:MGI:2385139]
Coordinates
chr2:37540417-37541176:+
Coord C1 exon
chr2:37540417-37540542
Coord A exon
chr2:37540543-37541032
Coord C2 exon
chr2:37541033-37541176
Length
490 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TAATAAGTTTGCTATTTCAGGAA
3' ss Score
5.77
Exon sequences
Seq C1 exon
ATGCCCGAAGAACAGGCATTCAGTGTTCTGGTCAAGATCATGTTTGACTATGGTCTCAGGGAACTTTTCAAACAAAATTTTGAAGATCTTCATTGCAAGTTCTACCAGTTGGAGCGCCTTATGCAG
Seq A exon
GTAAAGGGAGCTCAGACTGGATTGGATGAATAGGTGCAAACTAGTGGCAGAAAGACTGGGAAACAATGGCTTTTATTTCTGTTGTTTCTTACTGTGTGATGAGGATGAGAATCTGATGTGTTTAAGTCGGTCTTAGAAATGATCAAAAGAGCCCTTTTCTATAGCAAATTCAGGGAGGAAGTGTTCACAAAGGCTACAAAAGTGTCTGTTTAGGAGTCTCTTACCAAAGTTAAACAAGCTTTCCCAAACAAAACATTTCACAACTTAGAAGTAAAAACTAGCTTTCTAAATACTTGTCACTATTCTGTGGGAATTTCTCTTTCTTTCAACTAGTTTGTAGTCTGAAAAGAACTGGTAAATGCTATGATCACTTAAGAGATATTTACACAAGTATATGATTTTCTAGGCAACTGCTGGCAGATTTATGAGCTCCTGAGAAGTGATAGCATAACTGCATATGTGCCCAGAACTAATAAGTTTGCTATTTCAG
Seq C2 exon
GAATACATTCCTGACCTGTACAACCACTTCCTGGATATCAGCCTTGAAGCACACATGTACGCCTCCCAGTGGTTCCTTACACTTTTCACTGCAAAATTCCCTCTCTACATGGTCTTCCATATCATCGACCTGCTCTTATGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035437:ENSMUST00000066055:16
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:
PF0056613=RabGAP-TBC=FE(20.1=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(23.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGAAGAACAGGCATTCAGT
R:
TCACATAAGAGCAGGTCGATGA
Band lengths:
266-756
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