BtaINT0159575 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031575 | VAV3
Description
vav 3 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12659]
Coordinates
chr3:35859893-35861571:+
Coord C1 exon
chr3:35859893-35860044
Coord A exon
chr3:35860045-35860712
Coord C2 exon
chr3:35860713-35861571
Length
668 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
TGGTTGCTCTTCCTTTTTAGGTG
3' ss Score
12.14
Exon sequences
Seq C1 exon
TCTTAAGTCCAAAGGTGCTGGGCATCGCTATTGCTCGGTATGACTTCTGTGCCAGAGATATGCGAGAACTGTCCCTGCTGAAAGGAGATGTGGTGAAGATTTACACGAAGATGAGTGCGAACGGCTGGTGGAGAGGAGAAGTGAACGGCAGG
Seq A exon
GTGAGCGTCCCTCTCAATGTGACCATCATGTAAATGAAGGGGGCTGGGCAGCCACTGGCACCCATGATGCTGGGGGGGAACCCCTACACCACCTTACAGTTGTCACCCCCCCAGAGTCCTGGCTCCACATGGGTGGTGGTCCTTACTGAAAACAGGGACTCCAGAAAAATGCATTGCATGGCTAGGATACTGACATAAATAAAGTTTACTTAGGCAAATTTGATGGCTTCCTATTGGGAAAAGGGTTTAGGAGCATGTCAGTTCTTTTGAGTCTGTAAACCTCTTTTTAAGTCTAGAGCATCAGCTTTATGTGGAGCACAAAATACCTGTGAGAGCCACTGATCTAAATTAGAAAGAGCAGCATAGGACCTCTGTCTTTATATCCTGTTCTATAGCAGAAAGAGAGAGCATTAAGTAGTAGAACCCCTTAATTTACATATTTGTGTCCTCGCAGAGTAGAATACTGTTGAAGCGTATTTTATTCCACCCTTTCTACCACTCACTCTATTGGGCTTTTAGGAGCAGTTTAAACCAATCCTCTTCATCTGCAGTGGGCATTAAACCCCAGCTTAATTCTGGGTGTTATGAAAATGAAATGCTCTGTTTGTAGAGCCTTTTGAAGTGGTGGATAGAGTCACATTGCTGTGTTGGTTGCTCTTCCTTTTTAG
Seq C2 exon
GTGGGCTGGTTTCCATCCACGTACGTGGAAGAGGACGAATAAATTCCAGTCCAGCGTTGCACTGCACCAGGAATTTCAGAGATGGGATTAACAGCAGCCTGTACAGCATTATGAACTCACTGAAGTGTTTAAAAAGCTGCCTTTCTGGCTATTCAGCATCTTCCCTCTCTTTCCCCTCCTAAGTCTTAATGCTGGGATTTCTAAAGATGCTGGTACTGACAGATTAATGGCTCGCCTAGAGCTATGCAAGAAACAGCCTGCCCGTCTGTCATCGTCAGGGACCAGGGCAAAGCCAAAAGCTTTCTTCCCCCAGAAAGCCCTGAAAGCACATTGGTTCATGTTTCTTTCTATTTCTCTAGTCAGATGTCATGAATGCCAGCCATTAGTAAATGTTTAATGTGTATTTACTTTCTTCTCCTGTGCCATTCTCCAGAATTTTTGATGGTACAAAGCAGCAGAAGTTTAATTTTGCTTTCTTCAGCATGAAGAAAAATGGGAGTTCTGCCAGTGGGGCAGCTTACTGAAAAGGTCCAGCATTACTTGTCTTAAATTGCCCGGCAAGGTGACTCAGTGCCTGGCAAACACTTGTACCCCCCCTCCCCACCACCACCGGTGTTCCTCATGTGAAAGTTTAAGAGGCAAATGCTCAGCTTGGCTTAGTAAGTGACATAGGTGGGAGGGAGGAGTCAAGTATTCATTTGAAAACCTAATTATATTTGCAAACTTTTTCATAAGAAGACATACGCCAAAAAGTGGATAAAAGAATATCTTCATGTTAAATCTTTACAACCTCCATGATTTCATAGGGTTATTTTAGAAAATGTAGTACTTCACTTTATGAGATAATCTGGGCTGGGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031575:ENSBTAT00000020771:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765312=SH3_2=PU(75.9=80.4)
A:
NA
C2:
PF0765312=SH3_2=PD(20.4=78.6)
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:
TATGCGAGAACTGTCCCTGCT
R:
GGGCAGGCTGTTTCTTGCATA
Band lengths:
357-1025
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]