MmuINT0131721 @ mm10
Intron Retention
Gene
ENSMUSG00000022469 | Rapgef3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:MGI Symbol;Acc:MGI:2441741]
Coordinates
chr15:97747058-97747277:-
Coord C1 exon
chr15:97747223-97747277
Coord A exon
chr15:97747130-97747222
Coord C2 exon
chr15:97747058-97747129
Length
93 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
CTCCCTCTCTCTCTGCCCAGCGC
3' ss Score
10.67
Exon sequences
Seq C1 exon
CGGATGATGGCCAGAGCGGTGCGGATGCTTCACCACTGCCGAAGTCACAGTACCG
Seq A exon
GTAAGAGATGCTCTCCTGGGCGACAGCCCCTCAGCATCCCCCAGGGAGGCTCCGTGGGGCCATCTCCCTGACTCTCCCTCTCTCTCTGCCCAG
Seq C2 exon
CGCCTCTATCACCACTCAGAAGCCGAGTGTCCCACATCCACGAGGACAGCCAGGGATCAAGGATCTCCACGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022469:ENSMUST00000129223:26
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=0.600
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGATGATGGCCAGAGCG
R:
ACGTGGAGATCCTTGATCCCT
Band lengths:
127-220
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