MmuINT0131717 @ mm10
Intron Retention
Gene
ENSMUSG00000022469 | Rapgef3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:MGI Symbol;Acc:MGI:2441741]
Coordinates
chr15:97749496-97749741:-
Coord C1 exon
chr15:97749651-97749741
Coord A exon
chr15:97749547-97749650
Coord C2 exon
chr15:97749496-97749546
Length
104 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CACCTGTCTCACCTTCACAGCGC
3' ss Score
9.79
Exon sequences
Seq C1 exon
CCTCAAGGAGCAGAAGAACCTCAACTCTTTCTTTGCGGTCATGTTTGGCCTCAGCAACTCGGCCATCAGCCGGCTGGCCCACACCTGGGAG
Seq A exon
GTGAGTATCCGGGATTCTGCCAAGGCCAGGCTTCTGCCCTCCTGGGAGACGTTAGGGGGCTCTCTCTTCCCAGCCGTGGCCCTTCACCTGTCTCACCTTCACAG
Seq C2 exon
CGCCTGCCCCATAAAGTACGGAAGCTGTACTCAGCCCTGGAAAGGTTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022469:ENSMUST00000129223:22
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:
PF0061714=RasGEF=FE(16.1=100)
A:
NA
C2:
PF0061714=RasGEF=FE(11.7=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:
CCTCAAGGAGCAGAAGAACCT
R:
CAACCTTTCCAGGGCTGAGTAC
Band lengths:
139-243
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