MmuINT0172712 @ mm10
Intron Retention
Gene
ENSMUSG00000009621 | Vav2
Description
vav 2 oncogene [Source:MGI Symbol;Acc:MGI:102718]
Coordinates
chr2:27297668-27299472:-
Coord C1 exon
chr2:27299374-27299472
Coord A exon
chr2:27297737-27299373
Coord C2 exon
chr2:27297668-27297736
Length
1637 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CATAAACTTCTTCCTTCCAGAAC
3' ss Score
8.68
Exon sequences
Seq C1 exon
AAAATGGGCATGACTGAGGACGACAAGAGAAGCTGCTGCTTGTTAGAGATTCAGGAGACCGAGGCCAAGTACTACCGCACCCTGGAGGACATTGAGAAG
Seq A exon
GTGAGAGCCATTTCTCCTGGAAAGCCCAGGGTCAGGGTCTTAGCACCTGTTCCAGTTTTCTCTCTCTCTCTCTCTGCCTGTGAGGAAACTCTGACCAAAAGGAGCTGAGGGAAGAGAGGAGTTTACTTTATCCTAACTTGGAGATTACAGTCCCAGCGGGGGGAATCAGTGCAAGACCTCAAGCAGAAACCATGGAGAAAAGCTGCTTGCTAGCTCCTGCTTAGCAGAACAGCCCAGGACCACCAGGCCAGGGGTTGGTGCTACTTATAGCGGGCTGGGTCTTCCTGCATCAATGAATGCCCAGGCCAGCCCCCAGACACAACCACCGGACAGTCTGACCTGAGCAATCCCTCATTAAAACTCCCTTCCCGTGACTCTAGACTAGCAGGTTTCAACCTGTGGGTCTCGACCCCTTTGGGGGTCTCAATTCAGATATCCTGCATCAGAACAGATATTTACATTATGATTCATAGCAGTAGCAAAATTACCATTATGAAGTAGCATAATGGTAATTTTATGGTGGGGGTCAACATGAGGACCCGTATTAAAGGGTCACAGGTTAGGAAGGCTGAGGAGCACGGTAAGTTGACACAGCACACTGGGGTAACAGCCCCTCCACCTTGCCAGAGTGTCCCCACATAAGGTGCCTCCCCTCCCTTCTGTGGAAAGCCTCCCCTGCACCTCTTCTCAGTTCGCAGCTCTGCTTTTGAACATGTGAAGCCAGATCTTGAGCTAAGTTCTTCAAGCCTCCCCTTGCCCCGTGGGGTATACCGGTGCCTTTGTTGGTAGCCAGGAAAGTAGCACATTGGATATGATGGGCCATGTGACTAGATACCACCCAAGGCCCTGAGTACTGCCAGTGGCCTATATCCATCCACCTAGCCCCTGTCACCACTCAGTAGGCCTTGCTTTTGAATCTTCCTGGTGCATCAATGTCCTTGTATAATGAACAGTGCCACTGTCAACTAAAATCCTCTTGGCTGTTCTCTGGTGTGGAGTTTTCCCCAGTGTCTTTGTTATGGTTTCCATTGCTATAAATAAACACCATGACCAAAACAACTCTTATAAAGGACAGCATTTAATTGGGGCTGGCTTATGGGTTCAGAGGTTCAGTTCATTATCATCAAGATGGGAGCATGGCAGTATCCAGACAGACATGGGGCTGGAGGAGCTGAGGGTTCTCCATCTTCATCCAAAGGCAGACAGAAGACTGGCTCCCAGGCAGCTAGGAGGAGTGTCTTAAAGCCCACCCCCACAGTGACAAACTTCCTCCAAGGTTACACCTTCTCCAACAGGCCTCACCTCTAAATAGTACCACTCCCTGGGCCAAGCACATTCAAACCACCACACCCAATGTGGTCAGAATGGTGAGTGGGGAGCCTCTAGCCATGGTTCTGGTGTATGCTGCCCCTTGACCCAGGCTGACCTTACTATGGCCTCCACAGAGCTGTGGGCATGGACTGTGGTCTTGGTCCCAGCCTGCCTTGCCCACTCTGCAATCCCACATTTGTGCAGTCACACATTGTCCTCTGCATGTGCTGTCCAGTGAGCACTGAGCCCTCCCTGTGCAGGGCAGCTTTGGCTTTGGCTGGAAAGTGCCCACATACTGAGTGGCAGCATAAACTTCTTCCTTCCAG
Seq C2 exon
AACTACATGGGTCCCTTGCGGCTGGTGCTGAGCCCGGCGGATATGGCTGCTGTCTTCATCAACCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009621:ENSMUST00000056176:6
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=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=PU(11.5=60.6)
A:
NA
C2:
PF0062115=RhoGEF=FE(12.6=100)
Main Inclusion Isoform:
NA
Other Inclusion 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
- 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