MmuINT0130891 @ mm9
Intron Retention
Gene
ENSMUSG00000023015 | Racgap1
Description
Rac GTPase-activating protein 1 [Source:MGI Symbol;Acc:MGI:1349423]
Coordinates
chr15:99454000-99454490:-
Coord C1 exon
chr15:99454358-99454490
Coord A exon
chr15:99454124-99454357
Coord C2 exon
chr15:99454000-99454123
Length
234 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
GCTGGCTCTGTGCCCTTTAGGTG
3' ss Score
8.71
Exon sequences
Seq C1 exon
AGTGTCTCAGAGTCCAGACACTAAGATGGATATTGCCAATCTAGCTAAAGTCTTTGGCCCTACAATAGTTGCCCATACTGTGCCCAATCCAGATCCAGTGACAATGTTCCAGGACATCAAACGTCAGCTCAAG
Seq A exon
GTAGGGTTCATGGTGTGCACACACAGATGCAGAAGGTCTGATCTTTGCAATGCACTAACGTGGCACAATGACAGAAATAAGCCTTGCGTGGTGGGTGAGCACATGCAGTGGCCGGCTGTGCTGGGAGGATCTCCCCAGCCTGGTCTACAAGTTCTAGGCAAGCCTGGGCTGCAGAGAGACTGAGAAACACACCAACAACAGAACCTGCAGTAAGGCTGGCTCTGTGCCCTTTAG
Seq C2 exon
GTGGTGGAGCGCCTACTCTCTCTCCCCTTGGAGTACTGGAATCAGTTCATGATGGTGGACCAAGAGAACATAGACAGCCAGCGAGGCAATGGAAACTCAACACCACGCACACCAGACGTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023015-Racgap1:NM_012025:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.476
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=PD(20.5=68.9)
A:
NA
C2:
NO
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:
AGTGTCTCAGAGTCCAGACACT
R:
TTTAACGTCTGGTGTGCGTGG
Band lengths:
256-490
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: