MmuINT0172705 @ mm10
Intron Retention
Gene
ENSMUSG00000009621 | Vav2
Description
vav 2 oncogene [Source:MGI Symbol;Acc:MGI:102718]
Coordinates
chr2:27268899-27270215:-
Coord C1 exon
chr2:27270128-27270215
Coord A exon
chr2:27269023-27270127
Coord C2 exon
chr2:27268899-27269022
Length
1105 bp
Sequences
Splice sites
5' ss Seq
CTGGTACGT
5' ss Score
9.57
3' ss Seq
TGAGTGTGCAACCCCTGCAGGAG
3' ss Score
6.58
Exon sequences
Seq C1 exon
GTTCAATGATGAGGTGAAACATATCAAGGTGGTGGAGAAAGATAGCTGGATCCACATCACGGAAGCTAAGAAGTTTGAGAGCCTCCTG
Seq A exon
GTACGTGTACCTGTAACTGTCACTGCTCCAGACCCTGGCCAGAGGCCCAAGGGCTCTCCACTGTCCACTCTGCCCCCGATGATCCGTTCTCTCTGCCTAGGGAGGGGTGATTCTTCCCAGAGAAATCTAGAGACACTTGACAGGATTCCTGGGAACAGTTGGAGTCATGTTATACCGGAGTTGGGTCACTCCAAAACTTTCCCTAGCTCAAATGTCACCTTGGACATGAGATTACCAGTTGCCTCAGGCTGATCCTCTCCTCCCGTCCTTGTGGTCAGCCCCACCAGAATGCAGTTAAAGGCATTCTATTCCTTAAAGTGACACTAAAATAGTTGATTTTGACCTCCACCACTCCCTTTTGGTACTAGCACAGAGCCCAGGGCCTTGCACATACTAGACAATTGCCCTACCTCCGAGCCCAACCTCAACCCCAACCCTTTTTCTTTGTTTTTGGAGACAGACATGATGTAGCTCTGGCAGGTCTGGAACTCACTGTGGAGTTCTCTCTGCCTTCCTACTTGGCTGGAATTAAAGGCGTGTACCACCATACCTGGCCCCGTATTTTTTTTTTCTTCTTAAGTCACAAACATGGCTCCCCTGGCAGGACATTGGAGATTTCCTTTACCCCCTGTGACCTACAGGAAAACACAGGCAAACAGAAAGTGCCTGAAATCCTCTTCACAGCCCAGAGCTAACAAACACACACCATCTGGTGAGACTGTAGGTGCCTCTTGGGGCAGCCAGGCCGTGGTTCACAGAGCTCCTACAAAGCCACAGCACACCTCTTTGTGTGGCCGTCATTCGTAGCTGTCCAGTCCTCTGAGTGGCTCTAGCCTCGTGGCATTCTGCCCTGCAGGTGTGCCTCCCTCCAGCATGGATGGCACAGTCGTCAGCAGTTTGTTTTCTTTGGCATTCTTTCCAGAGCATTCTTTCAGCAATATTTGGGAGCCCTGCGCCTGAGGGAGAGGTTTTTGAGGCACTGGCCATCCTAGCTGGGCTTGGCTGGAGTGAGATTGAGGGGGTCTCAGAAGAGCCCATCCCTTGAACCCAGGAGGTGGGAGGGCTCCTGAGTCTCCAGCGGTTGGTGAGTGTGCAACCCCTGCAG
Seq C2 exon
GAGCTGGTGGAGTACTACCAGTGTCACTCACTCAAGGAAAGCTTCAAGCAGTTGGACACTACACTCAAGTTCCCCTACAAGTCTCGGGAGCGAACCACCAGCAGGGCCTCAAGCCGGTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009621:ENSMUST00000056176:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.063
Domain overlap (PFAM):
C1:
PF0001719=SH2=FE(38.7=100)
A:
NA
C2:
PF0001719=SH2=PD(6.7=11.9)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGAGGTGAAACATATCAAGGTGG
R:
CTGGAGACCGGCTTGAGGC
Band lengths:
206-1311
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types