MmuINT0131703 @ mm9
Intron Retention
Gene
ENSMUSG00000022469 | Rapgef3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:MGI Symbol;Acc:MGI:2441741]
Coordinates
chr15:97580437-97580825:-
Coord C1 exon
chr15:97580700-97580825
Coord A exon
chr15:97580619-97580699
Coord C2 exon
chr15:97580437-97580618
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
CTGGTCTTTGGCCCGTCCAGGTG
3' ss Score
7.49
Exon sequences
Seq C1 exon
ACCCCACACCCTGAGCAGCTGGGCCCCACTCTGGGTTCTTCTGAGATGCTGGACCTAGTGAGCGCCAAGGACCTGGCAGGCCAGCTGACCGACCATGACTGGAACCTCTTCAACAGGATCCACCAG
Seq A exon
GTGCAGGAGGTAGAGCAGGAGGAGGAGGGTGTGGGCGGGACACCAGGCCTAGCATGCTGACCTGGTCTTTGGCCCGTCCAG
Seq C2 exon
GTGGAGCTGATCCATTATGTACTGGGCCCCCAGCACCTGCGGGATGTCACCACCGCGAACCTGGAGCGCTTCATGCGCCGCTTCAACGAGCTGCAGTACTGGGTGGCCACAGAGCTCTGTCTCTGCCCTGTTCCTGGCTCCCGGGCTCAGCTACTCAGGAAGTTCATCAAGCTGGCAGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022469-Rapgef3:NM_001177810:20
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PU(12.9=57.1)
A:
NA
C2:
PF0061714=RasGEF=PU(26.3=97.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACCGACCATGACTGGAAC
R:
AGGAACAGGGCAGAGACAGAG
Band lengths:
177-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: