BtaINT0159523 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039160 | VAV1
Description
vav 1 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12657]
Coordinates
chr7:18935929-18936269:-
Coord C1 exon
chr7:18936204-18936269
Coord A exon
chr7:18936038-18936203
Coord C2 exon
chr7:18935929-18936037
Length
166 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGT
5' ss Score
8.49
3' ss Seq
CCTGACTCCGCGTCCTGCAGCGA
3' ss Score
6.41
Exon sequences
Seq C1 exon
GCCCTTCCCCACTGAGGAGAGTGTGGGTGATGAAGACATCTACAGTGGCCTGTCCGACCAGATCGA
Seq A exon
GTGAGTGTCTGAGACCATGATCCTGCCCTGGTGGTCTGAGAGACAAGCCCCGCCATGGGGGGTGGGGGTCTGAGGGGACTGGCCTCTCCCTGGGGTGTCGGAGGGTCCCTGGTCTGGGGGCTGGTCTGGAGGCTTCTCTGGCTCCGCCTGACTCCGCGTCCTGCAG
Seq C2 exon
CGACACGGTGGAGGAGGATGAGGACCTGTACGACTGCGTGGAGAACGAGGAGGCAGAGGGCGACGAGGTCTACGAGGACCTCATGCGCTCGGAGCCGGTGCCCATGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039160:ENSBTAT00000005560:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.261 A=NA C2=0.419
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCCCCACTGAGGAGAGTG
R:
GAGCGCATGAGGTCCTCGTAG
Band lengths:
154-320
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]