BtaINT0159513 @ bosTau6
Intron Retention
Gene
ENSBTAG00000039160 | VAV1
Description
vav 1 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12657]
Coordinates
chr7:18931384-18931816:-
Coord C1 exon
chr7:18931748-18931816
Coord A exon
chr7:18931471-18931747
Coord C2 exon
chr7:18931384-18931470
Length
277 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CACCCTTGCCCCACCCCCAGGAC
3' ss Score
9.32
Exon sequences
Seq C1 exon
GAGCTGGTGAAACACACACAGGATGCAATGGAGAAGGACAACTTGCGGCTGGCCCTAGATGCCATGAGG
Seq A exon
GTGAGTGGTCACACAGAGGGATGGCAGTGCCACCCAGACACCCATGGGTTTAAGTCAGGGAGTACCACCCAGGCACGGCCACACCCACGGCCGCCCCCTCCCTCCACCTCCCTCTCGAGACCTCCTGTACCTCGAATGATTCATTCCCAGCATCCCCCTTGGGGACAGTGACATTCTCCTGCTGCCCCCTGCTGGAGGTTGACCCTCTGTCCCTTGCCAGGTGGGGGATAGGACTGGGGGAGCGGGGCACCCAGGCTCACCCTTGCCCCACCCCCAG
Seq C2 exon
GACCTGGCACAGTGCGTAAACGAGGTCAAGCGGGACAATGAGACGCTGCGGCAGATTACCAACTTCCAGCTGTCCATCGAGAACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039160:ENSBTAT00000005560:10
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=FE(12.5=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(4.0=24.1)
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:
GAAACACACACAGGATGCAATGG
R:
CAGGTTCTCGATGGACAGCTG
Band lengths:
148-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]