MmuINT0172681 @ mm9
Intron Retention
Gene
ENSMUSG00000034116 | Vav1
Description
vav 1 oncogene [Source:MGI Symbol;Acc:MGI:98923]
Coordinates
chr17:57436123-57436580:+
Coord C1 exon
chr17:57436123-57436191
Coord A exon
chr17:57436192-57436471
Coord C2 exon
chr17:57436472-57436580
Length
280 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
GGCCTGAATCTGTCCCCTAGTGA
3' ss Score
5.86
Exon sequences
Seq C1 exon
GCCCTTCCCAACAGAGGACAGCGCTCTGAACGACGAAGATATTTACAGTGGCCTTTCAGACCAGATTGA
Seq A exon
GTGAGTATTAGGACCTGATGGGTGCAGCTTGTGAGACACAGTGGAGACTGGAGCCTGAGAGACATGCATCTGTTGTGTGGTCTGAGAGGGCTCTGATCTGTCCTGGAGTCTGAAGGGACACAGATCTGTCCCAGAGTCTGACAGAACATAGATCTGTCCTGTAGTTTAAGGTGACACATTGCAAGACGTGGGGGGAGGGGTGGCATTGTGCATTTATTCTTCATTCTGAAAGTTTCTGATGGGTCCCTGGCTTGGGACATGGCCTGAATCTGTCCCCTAG
Seq C2 exon
TGACACCGCAGAGGAAGACGAGGACCTTTATGACTGCGTGGAAAATGAGGAGGCAGAGGGGGACGAGATCTACGAGGACCTAATGCGCTTGGAGTCGGTGCCTACGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034116-Vav1:NM_001163816:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.324
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCCAACAGAGGACAGCG
R:
CGTAGGCACCGACTCCAAG
Band lengths:
172-452
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: