MmuINT0131814 @ mm9
Intron Retention
Gene
ENSMUSG00000038020 | Rapgefl1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:MGI Symbol;Acc:MGI:3611446]
Coordinates
chr11:98710689-98711293:+
Coord C1 exon
chr11:98710689-98710779
Coord A exon
chr11:98710780-98711242
Coord C2 exon
chr11:98711243-98711293
Length
463 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TTCCTTCAAACTCTTTGCAGAAG
3' ss Score
8.8
Exon sequences
Seq C1 exon
CTGCAAGCAGAACCAGGACCTGCTGTCCTTCTATGCTGTGGTCATGGGGCTGGACAATGCGGCTGTCAGCCGCCTGCGGCTCACCTGGGAG
Seq A exon
GTGAGGCGACCTGACCTTTCCCTTCTCTGCCCACAGTTGTCCCACCCCAGGATCTGTGGGCTCTCCCCAGTGCGGGCCTCCTGATGCAGCTGCTTTGTGGGGAATCTCTGTGCCAGTGAGAAGCAGGTGCCCTCTCCTGGCCTCTGCTACTCAGGACATAGAGCTTTGCCCCTATGTTGGCAAGCTGTTAAAAAGCTAGAATCCTACCCCAGTGGCCTTGCTAAGAGCCTCTCCTGGGTCTCAGCCAGCACGTGGAGGGAGCACTTCCGTGCTGTGTGAAGTTTCTCGGGCAGTTCCAAGCTCCCTGATTCTATGCCCTCACCTTCTCATTTCTCCTCCCCTCTGGAAATATGTCTATAACTCTCCGAGGAAGACTAGTCACACGCTCCCATGAAACTCAGGGAGCACCACACTGACATTTCTTTTGTTTTCTTTTGTTTTCCTTCCTTCAAACTCTTTGCAG
Seq C2 exon
AAGCTGCCAGGGAAATTCAAGAACCTGTTCCGTAAATTTGAGGGCTTGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038020-Rapgefl1:NM_001080925:10
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:
PF0061714=RasGEF=FE(16.2=100)
A:
NA
C2:
PF0061714=RasGEF=FE(8.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: