BtaINT0159555 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004511 | VAV2
Description
vav 2 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12658]
Coordinates
chr11:104674161-104675631:-
Coord C1 exon
chr11:104675563-104675631
Coord A exon
chr11:104674248-104675562
Coord C2 exon
chr11:104674161-104674247
Length
1315 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CCACCTCTGTTGTGCCCCAGGAC
3' ss Score
9.56
Exon sequences
Seq C1 exon
GAACTTCTGAGCCATTCCACCGACCGGCCGGAGAGGCAGCAGCTCAAAGAAGCGCTGGAGGCCATGCAG
Seq A exon
GTGGGTCACCAAGGCAGGGGAGAGGCCGGGCAGACAGGGCTTTCCGGGCCAGGCCTGCTGACTTGGACCGGACCTGGGCTAACAAACAACCTGCCCTCTGTGACCGGAGACGTAGATTTTCCTGGGGTGGCAGGAGACATAGGAGGGGGCAGGATGGTGGATGAGACCCACCAAGGGCAGAGGGGCCGTGTGTGTGTGCAGGGGGGCCCGCAGCGACTCCCCCGGGGCTCCGTTCCTCCTCTCCTGCCTCTCTGACTGTCCACGGCTACCGTCAGCAGAACCCAGGCAGCGGACTCGGTTGTGGGCTGCCTGGCCCCGTGGTTCCCTCTGTCGAGCCCTGTGGCAGCTGCTTCTGAAATGTCCCCCCCACCCCGAGCCACACTGCCTCTCCCCTGCCCGCTCCGTCCACAGAAGCCGCTGAGCAGCTCCACACTGAAAGGAGAGCCCGGCTCCGTCCCTCCCCACTCAGAGCCAGCCCGTGGCTCCCGCCGCCCGCGGTGCCTGGCCTCTGATGCACCCCGTTTCCAGGCAGGCTCCCGCGGGGGCTCCGTCCTTTCTCATCTGTGCGTTGTCTGGGGCTGAACTTTGCCCAGGTCACCGGGCAGTGCCGTATGCATTCTCCATCTTTACAAAGCCGTGTTCCCGGGAGGCCCGGCCCTTCGCTGGCTTCCGTGCCCCGTGGTGGGCGGTCTGTGTCAAAAGGTCCTCTTAGTGGCCTGTCGTCCTGGAGAGCCTTGCTCCAGGCCGTGGGGGCCATGGAGGCTGCAGGGGCTGGACGGTTCACTGTCCTGCCTTCAGGTCTCGGAACCTGCCCTGCCGGTGGGCTTCTGGGGCAGGGGCCACTGGAGGGGAGCCTGAAGTAGGCTCTCGCCCCCTACCCACCCACTGCCTGCCTCCTGGACCCCACCCCAGGCTCTGGGTGCCTGCCCCCTCGGCCTGCTGGAGCGCAGTAGGCAGTGCCCCCTGGGGACCTCTGGGAGGCCACAGCGCGTGGATGGCCAGGCCCAGAGCTGCCCTTGCTCCACAAAGAGCGGGCTGGCCCAAGTCTCCTTGGCTGCTCTCTTCCTCTCGGACCAAGAAGGGGGCCTAATGACGTTAGAAAGCAGCCACTCTGGTCTATGGGGGGTTTCGCGGCCCGCCAATGGGCTGCACCTTTCCGGTCTTATTTGTCAAGTGGGTGTCGCTTCTCACGCTGCATCACTTTGAGGCCCAGTCTCCTCTGGGAACAGGGGACGGTGCTCCGGGAATGTCCGGCCCTCGGACAGTGCCCAGCATGGGCCTGCTAACCCCCCTCCCCACCTCTGTTGTGCCCCAG
Seq C2 exon
GACTTGGCCATGTACATAAACGAAGTTAAACGGGACAAAGAGACCCTGAAGAAAATCAGCGAATTTCAGAGCTCTATAGAAAACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004511:ENSBTAT00000005932:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.087 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=FE(12.6=100),PF084296=PLU-1=FE(14.0=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(4.0=24.1),PF084296=PLU-1=FE(17.8=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development