BtaINT0159560 @ bosTau6
Intron Retention
Gene
ENSBTAG00000031575 | VAV3
Description
vav 3 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12659]
Coordinates
chr3:35652235-35654050:+
Coord C1 exon
chr3:35652235-35652303
Coord A exon
chr3:35652304-35653963
Coord C2 exon
chr3:35653964-35654050
Length
1660 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CCCTTCTCTTTATTCTTTAGGAC
3' ss Score
12.5
Exon sequences
Seq C1 exon
GAGCTGGTCAAACATACCACTGATCCTATGGAGAAGGCAAATCTGAAACTGGCTCTTGATGCAATGAAG
Seq A exon
GTAAGAGGAATGCATCATTAACTTGTTTGTATTTCTCATTCTTACTGGAAAGCAGTGACTACAAACTGCTAATACATATGTATGATATGCTAATAGGAATTATAATATCTATAAGTGTTTATGTAGTTTTATTGTTAGTGGGGAGAGCTGGATATTTTTAACTGAAATTAATATCCTTGCATGGATTTAATTATTGGACAAAAACTAAAACCAAGAGGTATATTCAAATAACTTTTGTTGTTTATGAAAGCATGTTCCCTTCCATAATCACCAGGAATGATTAAATAGAAAGGTTTTATTTCACATTCTTTTTATGGCTACTGGTAGAAAACTGTTGACTTACGCAAGCAGCAGGTTAGCTAATGACTTCAGAACACTGGTGTGACTTGTTTTCCTCAAGTGAGGATGTCTGCCATGTTTATCTTCATGGATGTTGTACGTCAGTAAAGTGGATCAATCTGGGTTTCTATTTCTGGTAAATCTGAAAATTAAGAACTTTCGATACAAGTAGATAAAGGCAGACATTTTGAACATAGTGGGCAATGCATAAAACCCCAATTTCCATGCTATGCTGGACTTAGACTTTGCAAGAAATAATATTTGCCCCAATTTACAACATACCCAAGTATTTGTTCTGGAGACAAAATGCCAACATGACTCTACTCAAAGCAATGCATAATGCTTACCCGTGTCCCTGTGCAAATCTCAGTGTTAGCTCTGCTGTTTAGATGACTTGAATACCATGCCAGGAAGCAGCACACGATTATTTATTATTATTAAAAAAGAGATACCAAATTTCCAGTTTTTTTAAAGAAATCTCTTACAGAGATATTCTATGAAAAATCGGGCTTTCATTTAGAACAAAGTTAGGAACTGCTTTTTGTGTGAGTTCTGTTCCTGCTGTTGCCGATGAATATAAGAGGATAGGGGAAAAAAGAAAAAGAACCCAGAAAACAGGAAAAATCTGGAGCACCTATAATAAAAATAGCTGGTTACAGTATGGAAAAATTAGCTAATGTTTCCTCAAATATGAGAAAAGATGTTTCAAAATAGGTAAAGGCATGTGGAAAAGCAAGGCCAGCGTTGTTTGTGCTCTTTCATTCCTTTTCTCCCGCCCTGGTTTCTCTCCTCTTCTTTCCTTCCCCTTTATTAACTCTTTGAAATTGACCTGGCACCACTGACTTAATGCTCCCCAGAAGTAAGACACTTAATTGGTTACAGACAACAGCCTTGCTGGATTCATTGTCTCACTTTTAGTTACTTTTCTGTCCTGTCTAATCCTTCATGATTGTCCTCCTAACTCAAGTACAAGTGTGACTCCCTCAAGGTCAGCGTTTGAAATTTACATGCTCCCGACCTGGTTTCCTTTTTGTTGTTCTGCATGGCAGCTTATTTTGTTTGTTTAGTGTTTGATCTTCCCTCTCCTCAAGGGTGTGGTAAAGGACAGGGCTTCAGTCTTCCCAGCTGTACTCCAGACGGTTTTAAATTGCTTTAGAGATGCAGCTTTGATTGACTGGGCTTTCATTTCATTGTCGTTGAAAAGTTATGGCGGTAACTTTTATCACTAATGAAATTAATGATGTGTTTCTTTTCAAACAGTGCTCATCTCTTGTCTGATCTTATCGTGCCTTCTTTTTCTCCCCTTCTCTTTATTCTTTAG
Seq C2 exon
GACTTGGCACAATATGTGAATGAAGTGAAAAGAGATAATGAGACCCTTCGTGAAATTAAACAGTTTCAGCTATCTATAGAAAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000031575:ENSBTAT00000020771:11
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:
PF0062115=RhoGEF=FE(12.6=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(4.0=24.1)
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]