MmuINT0131713 @ mm9
Intron Retention
Gene
ENSMUSG00000022469 | Rapgef3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:MGI Symbol;Acc:MGI:2441741]
Coordinates
chr15:97584208-97584750:-
Coord C1 exon
chr15:97584669-97584750
Coord A exon
chr15:97584355-97584668
Coord C2 exon
chr15:97584208-97584354
Length
314 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TCTCCACCCCTCCTCTCCAGTCC
3' ss Score
8.35
Exon sequences
Seq C1 exon
GCCCGGAATGCACCTGTTTGGCTCCCTAACCAGGAGGAACCCCTCCCAAGCAGCGCGGGTGCCATCCGAGTTGGGGACAAAG
Seq A exon
GTGGGTGGGGTAACTGAGCAGGTCAGGCATGCTGTCTCTGTCCCTCTTGCCTGGCTGCTGTTGTTGTGGGCTAGGGGAAGACTTGGCCCTCCTCAGGGTCTTTACTGCAGCTGCCAAGCAGGTTTTCAGCCACCCGTGCTGCTTCCTCAGGTCCCGGACTCCCCACTGGGCCTTGATATCAACCCACTTTGTTGTGCCTTGTATCCTGTTTCTGGCCTATGGGAGTCTTCTTGCTGCTGAGCTAGGGCCCTGCTCCTGGTGGGGAGGGGAGACCAGGCCTCTGCTTCCAGCTCATCTCCACCCCTCCTCTCCAG
Seq C2 exon
TCCCCTACGACATCTGCAGACCTGACCACTCAGTGCTGACCCTGCACCTGCCGGTGACGGCCTCGGTGAGAGAAGTGATGGCAGCTTTGGCCCATGAGGACCACTGGACCAAGGGACAGGTGTTGGTGAAGGTCAATTCTGCCGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022469-Rapgef3:NM_144850:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.643 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ATGCACCTGTTTGGCTCCCTA
R:
CACCGGCAGAATTGACCTTCA
Band lengths:
222-536
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: