MmuINT0130777 @ mm10
Intron Retention
Gene
ENSMUSG00000035437 | Rabgap1
Description
RAB GTPase activating protein 1 [Source:MGI Symbol;Acc:MGI:2385139]
Coordinates
chr2:37541033-37542678:+
Coord C1 exon
chr2:37541033-37541176
Coord A exon
chr2:37541177-37542636
Coord C2 exon
chr2:37542637-37542678
Length
1460 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
TGTTGTCTCTTCTCTTTTAGGGA
3' ss Score
12.82
Exon sequences
Seq C1 exon
GAATACATTCCTGACCTGTACAACCACTTCCTGGATATCAGCCTTGAAGCACACATGTACGCCTCCCAGTGGTTCCTTACACTTTTCACTGCAAAATTCCCTCTCTACATGGTCTTCCATATCATCGACCTGCTCTTATGTGAG
Seq A exon
GTATGTATCAGAGGCACAGGACTTAAATTTGAGTGTGAAGTATACATATAAGCTCTATCAAATCTCTTGTCTTCTGTTTTCTTTTGGTATTGCCAAGTCTGGGTTGAGGTGGTTCTTCCTGATGATAGTGTTCTGCTCACCTTTGTCACAGAGGCTCTCTGCTAAAAAGGCACATCAGACATTTAGACTAGACAGTATTCGGTTTGGCTCTGTGCTGCCAAGTGAAATAAGAGGTTTCTTTCTTGTGTACAGGAAGACAGATTGGCAGTACCCTGCTTTCTCAGAGTCTTATTCTTAGAATTAGGCCATAACTCTCATACCTGTATTTGTATTGGGGATTGGTACCTTATTTGTTTGTTTAGGGTTTCCTGGATGCAGAGAGCTCAGGTGTGTGCCACATCTCCTGCCTGGAGGCTTTCCTGGGTAGGGGTGGGCTGAGTTATATGACCGTGCCAGCTGAAAGGGAAATGTTTTGAGGCTGGGTAGGAATTTGCTAAAGATTATCACTAAAAGGAACAAGGCAGTGTGAAAAATGCCCTTATCCATGACATAGCTTGAGATTTGAAAGGTGTGTATGTGTTAAGAAAAAAACAACTAATTATAAATAATGTGCTTATGGCAGAAACTTTAGGAAATGTGATTAAAAACAATTGAAAATGATTTAATTTCACTGTCTCTACATTTACTTACAAATTTTTAGTGTATATTCTTTCAACATTTTTGCACTGGACCCAAAGGAGCATTTCAAAAGATAATGCATTTCTGCCCAGCACTCACGCGCGCACACACACACACACACACACACACACACACACACACACATATATATACACACATATATATATATATTACATTTTTCCGCTGTGATATTATGATGTATCACAGTTCTGTTTTTATATTTTGAAACAAATCTTTAATCCCATCACTTAGAAAGCAAAGACAAGTAGATCTCTGAGTTCAAGGACAAGCCTGGTCTACAGAAAGAGTTCTAAGACTCTCAAAGCTACACAGAGAAACCGTGTCTCAAAAATAAAAAAACAACAACCCAAAGTGGGGGGAGAAAGAAAAAGAAAAGCATTGGTTATAGGAGCGAAGACCCAAACGCTGTTTGAAGACAGTCATTAGCCCTTTCCCTCACCTGTTCTTTAGCCCACGATTCCCACTTTGTTGAGATGAGGAAGACAAATTAGAGGCCTCAAGGAGAATCCAGTCCTGGTGCACCTGGGATTGCCGTATTTGTAGGTTACTATTTAATGACTATAACATTTGGGTTTGGTGCCATGGACCATGGTGTCGGAACAGCATTCATTCTTCTTAAATATAAGGATAGGACTGGTAAAGAGCTTCTCTGAGGAGGCCTGGAGACTGGGTCTACTTTAAGTACCTTTCCTTGATGTCCCTGAAGCTAACAGAACAGAGCAGGTACAGAGAATAAAACTGTGTTGTCTCTTCTCTTTTAG
Seq C2 exon
GGAATAAGTGTCATCTTTAATGTCGCCCTTGGATTACTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035437:ENSMUST00000066055:17
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(23.0=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(6.4=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:
ACATTCCTGACCTGTACAACCAC
R:
CTTTAGTAATCCAAGGGCGACA
Band lengths:
182-1642
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