MmuINT0131728 @ mm9
Intron Retention
Gene
ENSMUSG00000022469 | Rapgef3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:MGI Symbol;Acc:MGI:2441741]
Coordinates
chr15:97589593-97589816:-
Coord C1 exon
chr15:97589756-97589816
Coord A exon
chr15:97589670-97589755
Coord C2 exon
chr15:97589593-97589669
Length
86 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
CTGATTGGTGTTTCTGTCAGTGT
3' ss Score
6.21
Exon sequences
Seq C1 exon
GTGAAGCGGGAACTAGCTGCTGTTCTGCTCTTTGAACCACACAGCAAGGCAGGAACTGTGT
Seq A exon
GTAAGTTGGGTTGGGCCACTGTGTCTGGAGCCATGGGGCAGTGGTGGGTGATAGGAAGGGACAAATCTGATTGGTGTTTCTGTCAG
Seq C2 exon
TGTTCAGCCAGGGGGACAAGGGTACCTCGTGGTACATTATCTGGAAGGGATCTGTCAATGTGGTGACCCATGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022469-Rapgef3:NM_144850:8
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=0.000
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PU(8.2=33.3)
A:
NA
C2:
PF0002724=cNMP_binding=FE(29.4=100)
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:
GAAGCGGGAACTAGCTGCTG
R:
GGTCACCACATTGACAGATCCC
Band lengths:
127-213
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: