BtaINT0159548 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004511 | VAV2
Description
vav 2 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12658]
Coordinates
chr11:104650713-104651758:-
Coord C1 exon
chr11:104651635-104651758
Coord A exon
chr11:104650800-104651634
Coord C2 exon
chr11:104650713-104650799
Length
835 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
TCTCTCTCGCCTCTTTGCAGCTT
3' ss Score
10.46
Exon sequences
Seq C1 exon
GAGCTGGTGGAGTACTACCAGTACCACTCGCTCAAGGAGAGCTTCAAGCAGCTGGACACCACACTCAAGTACCCGTACAAGGCCTGGGAACGCACAGCCTCCAGGGCCTCCAGCCGCTCCCCAG
Seq A exon
GTAACGCCCCTTCCAGGAAGGCTTCCGGTGGACCTCCCTGACCTAGGCCCGAGCCCCTTCCCGATTCCCGCCCCTGGGAGGGGTGGCCCAGGTCCCCCAGCTCTTCGCCAGCACCGTGCCTAGCCAGGGTGCCCGGGCAGCCCCGTGTGACCGGTCGGGAGTGCCAGCTCTGAATCGCTGCTCCAAACCTCGGTGCCTCTGCCTGGAGGTCAGCATGGGGAGGGAGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACCCCCCTCCCCCACCCCCTCCCAGGGAACCCGACTGCCAGGGAGCCAGAGCTGGGACCTCGACTTGGGAATGGGGCTGCCTGGCACAGACAGGGCCCAGCTGGATAGACAGGCAAGGTGGGCCCGGGGCTCCGTCTTGGAGCCACTCTGCTTCGTCCCGCTGCAGGGGCTCGTAGAACCACAGGGCCCCCCACCCCGGGCAGAGCAGGCCAGAGAGGAAGCCAGGCCTTCAGTGGGCGCCTCCTGAGCTCAGTGCGGGGCTGGGCCCTTCAGCAAGCGCCTCCTGAGTGCAGGCGGAAGGCTGGGATCTCTGCACGTGTCCTTTCCTGCGTCCCTGCTCCAGCCTGCCTGCTGGGAGGAGGTGGTCCAGGACACAGGTGCTGGGGGCGGGGGTGAGGGCAGCTGTGTCCATGCCCAGGTGGGCCTCAAGACTCCAGCTGCCCTCCTGGCGCCCTGGGTAGGCTCCCCCCCAATCCCTGCTGCCTGTGACTGCGTGTGGATGCCCCCAGCTCCCCTTTTCACCTTCTCTCTCGCCTCTTTGCAG
Seq C2 exon
CTTCCTGCGCTTCCTACAACTTTTCTTTTCTCAGTCCTCAGGGCCTCGGCCTTGCTTCTCAGGGCTCCTCCACACCCTTCTGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004511:ENSBTAT00000005932:21
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:
PF0001719=SH2=PD(6.7=11.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTACCACTCGCTCAAGGA
R:
CCAGAAGGGTGTGGAGGAGC
Band lengths:
190-1025
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development