MmuINT0172704 @ mm9
Intron Retention
Gene
ENSMUSG00000009621 | Vav2
Description
vav 2 oncogene [Source:MGI Symbol;Acc:MGI:102718]
Coordinates
chr2:27125648-27127411:-
Coord C1 exon
chr2:27127295-27127411
Coord A exon
chr2:27125736-27127294
Coord C2 exon
chr2:27125648-27125735
Length
1559 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGC
5' ss Score
6.39
3' ss Seq
CTGTCTGTCTGTCTATCCAGGTT
3' ss Score
11.43
Exon sequences
Seq C1 exon
GTTTGCTGGCAACATGGAACGGCAGCAGACGGACAATCTGCTCAAGTCTCATGCCAGTGGGACCTACCTCATCAGAGAGCGTCCAGCAGAGGCAGAACGCTTCGCCATCAGCATCAA
Seq A exon
GTGAGCCGCAGCTCTGGGCCCATAAGTGTCCCTCTTTAGCCTGCTACTGAGGAGGTGGAGTGGGTCTTCTCTCTGATGCCCAGGCTAGAAAATCCCAGACAAGATGGAAGCAGAGGACACGGGCTACCATCAGATCTCCTCACGTGTTCAGGGCTCCATGGCCACGTCACCCAGCTAAGGGCTGGGTTAGCATTTTCAGAGAAAGGTGGGCTGGCAGGACACTGAGAAGTGCCATCAGAGGTCTACTGGCAGCCAATCCAGTGAGTCTTATGCAGGATGTACGCATCACGCTGCTTTGTGGCATCTAGGGACCCTTGGAGACTTTCATCAGTGCCCATGGTAGCCTTGTAGCTTGGGCTACAGGTCCTTGATCTGGGCATCTTTCCTCAGATAAAAAACAAACAAGACCCTGAAGTTTGTTTTCCTCAGCCCAGGATAGCCATGGGCACAAGTCTTAGACCTGTTACTAGGTGTATGATTTGCTGTGATTCAGTGGGGTTATGCAAGTCCTGAGCAGGGCTCCTGGGTGAAGCAAGCTCCGTGATCTAGCTAGCCTCTTGGTAGCCATAGTAAGACAGCCTCTCGCTACAGTGACAGAGGCTGGGAACAGATGCCAGTGGATGCAGGAATCCTCATGGCCTTTTGGGCGGGTGGGCACTAGGGGCTAGAGCCGAGCAAGAGGCCCCCAGGTCTCCTCGCTTCAGGAAGGTCACACTGCCAGGAGCCATCACTTTCCCAAAAGGTCCTATGATGTTCAGGGCCTAAAGAAATTCATAGCCTGTGTCCAGCCCCACACAATGACATGGCAGCCAGCACTCCCACATCCTAGGAGTGTCCACAGTGCCTTGTGTCTGCCTAGTCTTTGGGACACCACAGTGGGGATCCTATTGGTCTGGCTCACAGCACATGTTAAAGCCACGTGAACACAGGTAGGTCCCTACCGTGGTCCTGTGGAGCAATGCTTGGTCACTCATTCATTCAGTGTCTCCTTAGCCAGTCTTAGGGTATTGAACCAACCTTGCATTCCTAGGATGTCTCCATCCCTCAGCACTGTTCAGTCCATGTTACATGTTTGGGTCATGTGTAGACATATTTAGGGAGATAGGTTCTCTTGCTTCACTGACTGAGTTCCTACACCCATGGACATCAGGACACTGGCTTGAGATTGCTGTCTGTGTGACATCTTGAACCTTGGTGTTGCCTCACATGGGCTGGGCTGTCATTTGCTGGGAGCCTCCCAAGGCTCTCTAGGTTAGATACACTTGAACTAAAGATGATGAGGGCAGGGCCGCTGCCCCTGGGACCTGATGAACTTGTGCTCCGTGCTTTGGAGCCTCCTATAGGGGGTTAGGGACTGAGGTCAGAGTTGGTAGTGGGGACTCTAGGGTATGGACTTAAAGTAGGCAGGGAGAGATATGGAAGATCTGCTCAAATGGAGTGGGCCAAGGGCTGGAGAGGCAGCTGCACAGTCAGTGTAGAGGTGTAGGTCAGGATCTTTGCTGAAGCAGATCTGGAATAAGCCTGGGGCTGTCTGTCTGTCTGTCTGTCTGTCTATCCAG
Seq C2 exon
GTTCAATGATGAGGTGAAACATATCAAGGTGGTGGAGAAAGATAGCTGGATCCACATCACGGAAGCTAAGAAGTTTGAGAGCCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009621-Vav2:NM_009500:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.075 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001719=SH2=PU(52.0=97.5)
A:
NA
C2:
PF0001719=SH2=FE(38.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCAACATGGAACGGCAG
R:
AGGAGGCTCTCAAACTTCTTAGC
Band lengths:
198-1757
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: