MmuINT0172720 @ mm9
Intron Retention
Gene
ENSMUSG00000033721 | Vav3
Description
vav 3 oncogene [Source:MGI Symbol;Acc:MGI:1888518]
Coordinates
chr3:109328787-109330464:+
Coord C1 exon
chr3:109328787-109328872
Coord A exon
chr3:109328873-109330331
Coord C2 exon
chr3:109330332-109330464
Length
1459 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCACACTCTCTCTTTTACAGGCA
3' ss Score
10.45
Exon sequences
Seq C1 exon
AACCAGCCAGTTTTGCTCTTTGGACGACCACAGGGAGACGGTGAAATCCGAATAACCACTCTGGACAAGCATACAAAACAAGAAAG
Seq A exon
GTGAGTGGCAGGTGCACTCTCACGGTGGTAGCTGCTGTCCCAGGAATGATGGCTTCAGTCAGGTATTCTAGGACAGGTGGCGGTGTGCAGGCCAGGGGGCCAGCCAGTCACCAGTCCCTTACCTTTTCTAACATATGTCCCATGTATTACTTCTCTTTCTAGCCTGCACTCTGTTGATTTGCCTAAGGTTTTAGGTGCTAAATGAAAATGTTCGAAAATAAGACGCATTTCAATCATGAAACGCCACCAGACGATTGCCGTAAAGCCACGATTGCCTGTTTTAAAAGACTCATTTGGAAATTAACTGAAAATAATAAAAATCATCCCAGGGAGGAATGCAGAATGGGAACTGTTTAGCAGTGTATTTTTATTTAGGGAGACCTCTAGGCAGAGTCCTTGAATATCCTTAGTACTCTTGGCCTTTTATTCTCTGTCATGACAGGCGATTGTTTCCCCGGACTCTTTGTAGAAGAAAACGTCTACCAGCAGGGGGCAGCATTGACCCTTGTTTCCACCTTGATACCCGGGTTCCTCAGCTAGTTCTCAGGAGCCACACATTTGACTTTGAAGATGAGGAAAGTGTTTGAACACTGGGAATGTGTCATTGTCACAATCATTGGTTAAGAATAAGTGTGTTAATCATTGAGAGTTTTAAAAAGCACACATTTATTGCAGTTGGATAAGGTTAGAAGATTCGTTTCCTTCCCCAATTAACATTGCTTTTAATAAGGAAAAAAAAAATTAACACAGAAAGTTAACCATCACTTTCCTGGCTTGCAGTTTCTCTTACACCCAAGCTACACTTAAGGTGACCCATTAAATTGTGACACCGAACACAAGGAGTGAAGGCACAGGTTCTAAAGTTAGCTTGGGTGCGATCTTACTCTGTATGGATCATCAGTGTAACTGCTGGCAATTTGCATACAAGCCCCCGCCCCTCCAGCGTGGGTTTGCACACCCAGGATGAGAGTAATTCCGACCCGGGTGGGGACCCAGGGGATTTATTTTATGTCTTGTTTGTGGAACGAACAGTTCTCAAGGCTTTTGATTGATTGCTATTACGGTTGTAGAAGATCTACTGTCCTGATTGTGAATATTTTTCTGAGATTTTAGCATTGAAATAAAAAGAGAGCAATTATTCATGAGCAGCTTTATGGCCTATCTTAGTGAGTATTTTCAATGACTCTAAAGTGTATGGATTGCTTTTCTAATGCTCCCTCCCTTCCTTTAAGTTCAAATGAGGGGAGCTGGGGTGGAATGGCAGCATCTCTCCTTGAGCCCCATGAAGGACAGTGATGATCCTGTGAGCCTGTATTCCTTACAGTTTCTACTGTGTGGCCCTGCCTGTGGCCCTTAATGCAGAAGAACGCTTGGCTGGTGCAGTCACATCTTGCCAGGAAAAAAAAAAATGCACTTGCAAACAGTTTGCTGTCAGTCACCCACACTCTCTCTTTTACAG
Seq C2 exon
GCATATCTTCTTATTCGACTTGGCAGTGATTGTCTGTAAAAGGAAAGGCGATAACTACGAGATGAAGGAAATAATAGATCTCCAGCAGTACAAGATAGCCAACAACCCTACCACTGACAAAGAGAATAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033721-Vav3:NM_020505:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.103 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016924=PH=PU(17.8=62.1)
A:
NA
C2:
PF0016924=PH=FE(43.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCCAGTTTTGCTCTTTGG
R:
TTTATTCTCTTTGTCAGTGGTAGGGT
Band lengths:
214-1673
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: