BtaINT0159549 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004511 | VAV2
Description
vav 2 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12658]
Coordinates
chr11:104649625-104650799:-
Coord C1 exon
chr11:104650713-104650799
Coord A exon
chr11:104649783-104650712
Coord C2 exon
chr11:104649625-104649782
Length
930 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCG
5' ss Score
10.05
3' ss Seq
ACGCCGCCCATCTCCCCCAGCAG
3' ss Score
6.11
Exon sequences
Seq C1 exon
CTTCCTGCGCTTCCTACAACTTTTCTTTTCTCAGTCCTCAGGGCCTCGGCCTTGCTTCTCAGGGCTCCTCCACACCCTTCTGGTCAG
Seq A exon
GTACCGCTGCTGCTCGGGGGCGTGGGGGGCCCGGCCTGCCGCCAGCCGACCCACAGCCCCAGCCTGACCGTGTCCACAGCCACTGCAGCCGGGGCGGGGCAGGGCAGGGAAGCTGGACGCTGGCGGGGGTGGGAGGGGGGTTGCTGCCGCTCCTGTGGACACTGTTGGGCTCGGCCCTGCCCTCGCCTTTGAATCGCTCACCCCCATGACCCCTCCCCAGCTCATCAGCCAGTGCCCCCTACTGCTTCCTGGGAGCTTGGCCTCTGATAGCAGCAAACGGCCCAGCGGCCCCCTTGAGGGAGGTGGGAGCAGATCGGGGTGGGCCCCGCTCAGCAACAGTAAGGAGGACTTGTGGGACTCGGTGCAGAGGGACAGTCCTGACTGGCCCTGACCGCTCAGCCCGCTGCTGCCAGAGTCAGAGCCCACCAAGCAGCTGTTTGTGCAACGTCCCCCCCTCGTGTCCATTGCCACCTGTCCATCAGGACTCCCGGGTCCCAGGCCACGCTGGTCCAGCCCGGTGTCCAGTTTGGTTTGGGGTTGGACACCAGTGCCCTGGGGTCCACGTCCAGGCCCTTGTCAGGGTGACAGCTGGGGCTGGGCAGCGGTCACCGTGCAGTCCACTCATGTGTTTCCCAGACGCTGGGCACGTGGGAAGGCCCTCAGAGAGCTGTGATGGCCCCCAGCGCGGGTGGTGAAGCTCTGGCTCCAGCCCGGTGCGGCTCACATGGCCCACATGCCTGCAGCCTGGGCACCCCCAGAGGACTGAGGGGCCCTGGGATTGGAGCCTGGTCTGTCCCTCTGGTGTCTTTGTGCTTGATAGCCTCCTCTGCGGGCACAAGGCCGGGCCCCGGGGGAGAGACCCAGCTCAGTCTGAGGACCCCCACCCTGGAGGCCCTGACGTCACCGTGTGACGCCGCCCATCTCCCCCAG
Seq C2 exon
CAGTGTTCACACCCCGTGTCATCGGCACGGCCGTGGCCAGGTACAACTTCGCCGCCCGCGACCTGCGGGAGCTCTCGCTGCGGGAAGGTGACGTGGTGAAGATATACAGCCGCATCGGCGGGGACCAGGGCTGGTGGAAGGGCGAGACCAGCGGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004511:ENSBTAT00000005932:22
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:
NO
A:
NA
C2:
PF0765312=SH3_2=PU(76.4=79.2)
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:
CTTCCTGCGCTTCCTACAACT
R:
CTGGTCTCGCCCTTCCACC
Band lengths:
238-1168
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development