BtaINT0159562 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031575 | VAV3
Description
vav 3 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12659]
Coordinates
chr3:35657258-35659004:+
Coord C1 exon
chr3:35657258-35657343
Coord A exon
chr3:35657344-35658871
Coord C2 exon
chr3:35658872-35659004
Length
1528 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCTTGCTCTCTTTCTTTCAGGCA
3' ss Score
12.09
Exon sequences
Seq C1 exon
AACCAACCCGTTTTGCTTTTTGGACGACCTCAGGGAGATGGTGAAATTCGAATAACCACTCTAGACAAACATACAAAACAAGAAAG
Seq A exon
GTGAGAAGGATCAGTACTTATTTAGAAAACAGTTATTAGTATCAGGAGATTGAGAAAATCTTAAGGACGTTTCCTTTAGGATAAAGGAGTGAAATAAAGGAATAAAAATAAGGGAAGAGACCAATCTATTGCTTTTTAATTTCTATGGACATGTTAGGTATTCCCTTCTTTGTTCTGGTATCTGTTATTTCCCTAAGTTTGAGTTCTTCAGAAGGAAAAGAAAAATCTAGAATGTCAGCTAGAGTAAAAAAGTACACATTAAAATGAGAGGAGCAATAAAATAATAATAGATACCATGAAAACACAATTGTTTAATTTTACTTTTTGGTATGCATTATAAAAGAACTAAAAGTAATACAACATGTCTTGAGAATGAGGTCCAAATAAGGGCCATTTAAGTGAGATTTTCTTGAGGGAAATATGTAGGTGTGTTCCTTAAAGATTAGTCAGCTTGCCTGGTGTCCCTAATTATCTATATGTATGTGGTTGTTAAACTGATGTATTTGATTGAAATGGCCATTTTCTGGAACTTTAGGATAGTAGAAAGTTGACCAGTAGGGGGCAGCATCCCTCTTGCATCCACCTTGACACCCAGGCTCTAAAGGTAGGTCTCAGGAGAGACACATCCTTTTAGCCTGTCCCAGAAAACAGTCTTTGAAAGTGATGCAAGTAATAAGGCTGTGTGAATGTCTCATTATCACAATGTATATGTGTTAATCACTGACCGAGAGTTTTCAAAAAGATACAAGTGTTGGTATTGGATGATAGGATTTATAAGATTTGTTTTCTCCCTCAATTACATTGCTTTTCATAAGATAGAAGAGAAATATCAAGGTGTAAATTTAACCATGATTTCTGTAGCTCACATTAGGGTCATGCACCATTCAGTTGTATTTCAAGTTGTCCGTTAAAGCATAGGAGCAGTATACAGGGCCAAGCACAGGTTCCACAAGTAGACCCAGGAGTGAGTCCTGCTTTGCAGCCACTAGCAGTGTGATCCTGAGAAAGTTACCCGACTTCTCCGAGCCTCGGCTTCCTCCTCAATAAAATGACGGTGATGATACCTACCTCAGGAGGTGGTCCTGGGGATTTAAATTAAGTGAGCCATCTTTGTGGAAGGGATGAATGCTTCTCAAGGCAGTCTAGCCCACACCTAGTAACAAGGGTAGATGTTAACCACTATTGTTGCCATTAATATTTTCCCATGGGTGTTTATCTTTTAAACTGGAAGAAAAAAGTACTGGTTCATGAACAGCGCTTTATGACTTAATTGTTCCTGGCAGCAACCCTGCAGTGTGCATATTATTCTTGTTATAATTTTGCCTGTTTTTTAACTGTGGAAACTGAGGTACAGCAGGGTTATCATTTAGTAAAGGGCAGTGCCAGGACATGCGGCTCATTCTTTCAGTGTGCAGCATTGTCTTTGTCTTTAACTCACGGGATAAATTAAACTTTACTTGGGAAGAATTAACACATGTTCTTCCAAGCTATTTAAATAAATCAATCTCTCTTGCTCTCTTTCTTTCAG
Seq C2 exon
GCATATCTTCTTATTTGATCTGGCAGTGATTGTATGTAAAAGGAAAGGTGATAACTATGAAATGAAGGAAATAATAGATCTTCAGCAGTACAAAATAGCCAACAATCCTACAACTGATAAAGAAAATAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031575:ENSBTAT00000020771:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.103 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016924=PH=PU(17.8=62.1)
A:
NA
C2:
PF0016924=PH=FE(43.6=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:
ACCAACCCGTTTTGCTTTTTGG
R:
TTTATCAGTTGTAGGATTGTTGGCT
Band lengths:
206-1734
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]