MmuINT0172678 @ mm10
Intron Retention
Gene
ENSMUSG00000034116 | Vav1
Description
vav 1 oncogene [Source:MGI Symbol;Acc:MGI:98923]
Coordinates
chr17:57318628-57324793:+
Coord C1 exon
chr17:57318628-57318742
Coord A exon
chr17:57318743-57324641
Coord C2 exon
chr17:57324642-57324793
Length
5899 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
ATCTCATTTTCTCTTCACAGCTG
3' ss Score
10.68
Exon sequences
Seq C1 exon
GAACTGGTAGAGTTTTATCAGCAGAATTCCCTCAAAGATTGCTTCAAGTCGTTGGACACCACCTTGCAGTTTCCTTATAAGGAACCTGAGAGGAGAGCCATCAGCAAGCCACCAG
Seq A exon
GTAGGAGGATGCTGCAGGCTGGAGGGCTGTACAGTGCCTTCTCTTGTGGGAGGAAGAGCCAGGGCTTCCAGGGCCAGCTGGCCTGCCTGTACCTTTTTTATTTTTTTAAATGATTCTTTATTGAATACTTATTTATGTGGCATTGTGTGGTGTTGGGGATGTCTCCTTTTATTTGCTAAAGATTTATTTACATGTGTGCTGTATGTGTACATCTGTGTGTGTTCCACACCAGTGCAGTATCTGCAGTGGCCAGAAAAGGGCACTATGTCCTTGGAGCTGGAGTTATAGGTGGTTGTGAGCTGTTCAGAGTGGGTACTGGGAACTGAACCCAGGCCTTCTGGAAGAGTGGCAAGCATTCCTTATTTTCCCCTTCCCTCCGTCCCTCCCTCCCTCCCTCCCTCCGTCCCTCCCTCCCTCCCTCCCTCCCTCCCTCCCTTCCTATTTTTTTTTTTTTTGAGGCAGAGTTTCTCTGTGTAGTCTTGGCTGTTCTGGAACTTGCTCTATAGATAAGGCTGTCCTTGAACCTAGAAAGTCACCTGGGTCTGCCTTCTGAGTGCTGTGTACCACCAGTGCTTGACTTCAGCCAGCATTCTTAATTACTGAGCCCTTACTTTATACATATATATATATGTATATAATTTTTATATATGTATATATAGCAATAATTATTATTTAATTTTTTTTTTACAATCCAGTCGTTATTCCCCTCCTCGTCCACCCTCTGACTGTTCATCATCTCCAAGAGGATTTCCCCCACTCCCACCCCCACCCCATCAGACCTCCCCACTCCCTAGGGACTCAAGTCTTTCAAGAGTTAGGTGCATCTTCTCTCACTGAGGCCAGATCAGACAGTCCTCTGATATGTGCCTGGGGCCTCATATCAACTGGTGTATGCTGCCTGGTTGGTGTCTCAGTGTCTAAGAGATCTCTGGGGTCCTGGTTAGTTGAGACTGCTGGTCTTCCTATGGGGTCGCCCTCTTCCTCAGCTTCTTCCAGCCTTTCCCTAATTCAACCACAGGGGTCCCCAGCTTCTGTCCATTGATTGAGTGTAAGTATCTGCATCTGACTCAGCTGCTCGTTGGACCTTTCGGAGGACAGCCATGCTAGGCTCCTGTCTGTAAGCACACCATAGCATCAATAGTAGTGTCAGGCCTTGGAGCCTCCCCTTGAGATGGATCCCAATTTGAACCTGTCACTGGACCTTCTTTTCCTCAGGCTCTTCTCTATTTTTGTCCCCGCAGTTGTTTTAGATAGGAACAGTTCTGGGTCAGAGTTTTTGACTGTGGCATGGCAACCCCATCCCTTCACTTGATGTCCTGTCTTTCTACTGGAGGTGGGCTCTATAAGTTCCCTCTCCCCACTGTCGGGCATTTCATCTAAGGTCCTTCCCTTTGAATCCTGAGAGTCTCTCACCTCCCTGGTCTCTGGTACATTCTTCCCCCAACTGAAGCTCCTTTCTCTGTGATAACTCAAGCCTGTGTCAAGTTGACACACGAAACCAGCCAGTACAATTGACCCCTTGTCAGCCTGACACACAAACACATCACTATTAAGGCTCAACCCTAACTTTCTTATTCATCCCCAAGATCTAAATAACTTTAAAAGTCCCACAGTCTTTGCAAATTCTTACATATTAAAATTTCAATCCCTTAAAAATATCCAATCTCTTTTAAAATCTGAAGTCTCTTTACAATTATAAGTCTCTTAACTGTGGGCTCCACTAAGATACTTTCTTCCTTCAAGAGAGAAAAATATCAGGACACAGTCACAATCAGCAAAATCAGACTCCAACTGTCCAATGCCTGGGATCCACTCACGATCTTCTGGATTCCTCCAAGGGCTCGGGTCACTTCTCCAGCCCTGCCCTTTGTAGCACACACCTTGTCTTCTACGCTCCAGCTGCCTATACTCCCCTGCTGTTGCTGTTCTTGGTGGTCATCTCATGGTACTGGCATCTCCAAAAGACTGCTGTCTTCTGCTGTAACTAGGCTTCACCAACAGCCTCTCATAGGCTCTCTTTATAGTGTCAAGCCTCAATTCCTTTGCATGACCCCTTCAGTCCTGGGCCATCAATTGCAACTGAGGCTGGACCTTCACCAATGGCCTTCCGTGGCCTCTCACAGTGCTGAGCCTCAGCTGCTCTGCATGACCCCTTCATGCCTTCAAAACCAGTACCACTTGGGTGACTCTTACACATTACCAAGTCCTGCTGCTGCACAAGGTACAACACTGGCTATCTCTGGAACACAGCTTCTGTGCTCTCAGAAAACACTTTCCAGAGGATTTCACCTCAATTATGCTGGTCTTTTAATCACTGAAAATTTCTTAGCTCCAGCTAACCAGCATCAATAGTGCCAGTAATGCAAAGTTTTTGCTTTAGTAGTTCTGGTATCTTGCTAATCACAGCTGATTCTTCAGCCCCAGCTAACCAGAACCACAGAATCTTCACAATCAAAATAGCAACAGCCCTGATAAAAGTCTGTAATCTTCCCTCTGAAATTTCACAAGCCAGGCCTCCATCTTCTGCATTGTTCTCAACATTATCTTCCAAGCTCCTACAGAACATCCCACAATGCTCTTAACACCAAATAGATCTTCTAGTCCAAAGTTCCAAAGTCCTTCCACAGTCCTCCCTAAAACATGGTCAGGTTGTCACAGGAATACCTCACTTCTGGCACATCCATCCTTGCCAGTAATCCCCTTTCCCAGTTTCCCCTCTGAAAACCCCCTATCCCATCTTCCCTCACTCTGCTTCTATGAGGGTGCTCCCCTCCCCCACTCATGCCTCCCTGCCCTAGCATTTCCCTACACTGGGACATCGAGCCTTCACAGGACCAAGGGCCTCTACTCCTACTGATGTCTGACAAGGCCATCCTTTGCTACATATGCAGCTGGAGCCATGAATCGCTCCATGTGTACTCTTTGGTTGGTGGTTTACTCCCTGGGAGCTCTGGGGTGTCTGGGTGGTTGATATTGTTGCTCTTTCTATGGATTGCAAACCCCTTCAGCTCATTCAGTCCTTCCTCTAACTCCTCCATTGGGAACTCCATGCTCAGTCCAATGGTTGGCTGCGCGCATCCACCTCTGTATTTGTCAAGCTCTGACAGAGCCTCTTAGGAGACAGCTATATCAGGCTCTTGTTAGCAAGCATTTCTTGGCATCTGCAATAGTGTTTGGGTTTTATGTCTGTATAGGGGATGAATCAACAAAATACTCCTAAGAGGAAACGAGGAGACAAAGTATGGAGCAGAGACTGAAGGGAAGGCCATTCAGAGGATGATATTTTCTAGTTCCATCCATTTGCCTGTAGAATTTGTGAATTTCACATCATGCACCCCAGACACAGGGATCTCCTCACTTCTCCACATCTGTCCTCTGCCTCTGCAACCTTCCCCCAAAGAAAACAAACAAACGAAAGAAAACAAAAAACCCACCTAGCCATGAAATCTGCAGTGTGTCTCAGCCTGCTGTGCAGTACACCTTGTCCAAACAGCTTTGCTCTCAAATGATCATTGGTCTGCTTCGAGGACTCTGGCTTCTGCCACCGTGTAGTGGGTATGGGTAGGCGAGTAGGTAAGGGTGGGCAGTGAGTAGGGGTGGGGGATGCAGGGCCAGCTCACCTCCCTGCTGTAGGAGGCAAGGGTGGGGGTGGGTGGGGCATCTCTTTGACATCTGTGCCACTTTCTAGCATTTGAGGGTAGGGCCAGCTCTCCCAAGTGCTTTAGCAGGGGAGGGTGTGGCCAGCTTTGCTCAGTCCTTGGATATCTTATCTGGCCCCAGGTAGCAGCCCAGCTCAGGCCATCCTTACGGCCCTTGGTGGTAATGTCAGCTGTGACATTGACACAGATCCTGACATGGCCCTCAGTGGCAGCACTGGCTGGAACTTCACCATGGCCTCAGGTGGAGCACAGGCTATCCACATCTGTTTGTTTCTCATTACCCTCATGTCTCTGGGTCTGCCTCTTCATAGTGCACAAATAATTTCCTGTCTCTTCTTCTCCCATCTCTCTATCACATTCTTGCTCATCATAGTGCCCCACTCCCACCCCTGACCCCAGAGCCATCGGTGACATCTTCACCGATGTATGATGGTTAAATGTTTGTCCAACCCAAAGATTCCAAAGGAAGTATATCCCTGGCCAAAGTTAAACACAGCACAGCAAAAACTTAATTCAACATATAGTTGCACAGTCTCATGGTTGAATCACAAGCAAGTAGAGAGATCAGCAGATAGGCCAATGATGAGAAGTCAACACAGCCGGATATGACAGTCAGCTGTGGTCTCCACTCTGCAGGTTCTGCTCTTCTTCCTAGCCTAGGATGCAGCTCTGAGAGTCATAGCAACAACACTGTGGTGGGTTTTCTCAAAGGAAAAGGCACAGCCCCACTGGTACTTGTGTCTCTTATTGGCTCTATTGAGTGACAGTGTGGTTCCCCAAGGAGCAAAAGCAACAACAGCTTTTGTGTCACCAATCCCACCTCTCTTCAGAGGGCTCAAACCACTTAGCTTCTCTCCCTCTTCCTTCTCTACACTTGTTTGCTGCCTGCTGTGGCTGCCCCGGGGAGCCGTGCAGGGTTGTCTCTGCACTTCCCACACTGCATCTGGGCAACTCAGTGAAATCTGGATGGAACTCTAGAGACAGAATGGCGGCTATAGCCACTGCTCTTTTCCCTAACAACGCTTGTCTCAGTGCCACTGACATTGAGATATCTTTTAAATTGTTTTTGTTTTTTCTTGAGGCAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCCCTCAAGTGCTGGGATCAAAGGCGTGCTCCACCACCGCCTGGCACTTATTTTTAATTTTAATTATGTGTATACATGTGTGCCTGTGTATGGCTATGTGCACTTGAGAGCAGTGTTTACAGAATACAGAAGAGAATGTTAAATTTCCTGGAATTGGAGTTGTAAGTGGTTGACAGTCTCCATGTGGGCGCTGGACTTGACACTCTGAATCACCCTCTAGCCACCTGTAATGACTTTTTAAAATATAGTCTCTCCGTGAATCTGGACCTAAATATGCTGTTAGGGTCTCACAGATGTAGAGAAATTGAGTGTACACAAAACGCTGTTAAAATTATGGAAGACCTGGTTTTACCAGGTGTGATGGTGTGTGTTCATAATCCCAGCACTGAGGAGGAACCTGAGGCAGGAGAATGACAAGTCAAATCACACTACATCATGAAACCCTACTTAAAAAATTCAAATTTCCTAAACTTGGGTACTCATCAGGCTGGGAGGTCAGTGTTGGAAGTAGAGCTGTATCCCTTCAGCTTAGAGGTCACTTAGTACGGTGCATGCTCTAGTTTTATGTCTATTGATGTGATAAACTATGACAAAAAGCACCATAGGGGAGAAAGGGTTTATTTTACTTCCTGGTTCCAGGTTCCTGTCCCTTACTGTGCAGCTGGTCACATCCTATGAGCAATCGTGAGCAGAGAGAAGTGAATGTGTGCTTCTCATTTGCACACAGCTTACTTTGTCCACTCTTATTTGGTTTAAGTCTCCGCTCCTCTCCTTCTCCAGCCCTTGCCTAGGGAATGATGCCACTCATGGTGGCCTGAAAATACCCATCAATTCACTTCATTAAGGCAATTCATGTAGACATAGCCACAGACCAACACACTGTAGACAGTCCCTTACTGGGACTCTCTTCCTGGATGATTCTAGGTTGGGCCAAGTTGACAATCGAAGCTAACTATCACAAAAGCCCAAATAGATGGTACCATCCGGAGAACATGTCCCCTCTCTACACTGTCTACAGATGATGGCTGGATGTTTATCTCAGATGCTTAGGTATCTCATTTTCTCTTCACAG
Seq C2 exon
CTGGAAGCACCAAGTATTTTGGCACTGCCAAAGCCCGCTACGACTTCTGTGCCCGGGACAGGTCGGAACTGTCCCTTAAGGAGGGTGATATCATCAAGATCCTCAATAAGAAGGGACAGCAAGGCTGGTGGCGTGGGGAGATCTACGGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034116:ENSMUST00000005889:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001719=SH2=PD(10.9=12.8)
A:
NA
C2:
PF0001823=SH3_1=PU(85.1=78.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
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