MmuINT0131717 @ mm9
Intron Retention
Gene
ENSMUSG00000022469 | Rapgef3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:MGI Symbol;Acc:MGI:2441741]
Coordinates
chr15:97579927-97580172:-
Coord C1 exon
chr15:97580082-97580172
Coord A exon
chr15:97579978-97580081
Coord C2 exon
chr15:97579927-97579977
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-Rapgef3:NM_144850:22
Average complexity
IR-C
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(21.9=100),PF136131=HTH_Tnp_4=PU(69.7=74.2)
A:
NA
C2:
PF0061714=RasGEF=FE(11.7=100),PF136131=HTH_Tnp_4=PD(24.2=47.1)
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: