BtaINT0159546 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004511 | VAV2
Description
vav 2 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:HGNC:12658]
Coordinates
chr11:104684624-104686450:-
Coord C1 exon
chr11:104686352-104686450
Coord A exon
chr11:104684693-104686351
Coord C2 exon
chr11:104684624-104684692
Length
1659 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CGCAGGCTTCTCTCTTGCAGAAC
3' ss Score
9.56
Exon sequences
Seq C1 exon
AAAATGGGCATGACAGAGGATGACAAGAGAAACTGCTGCCTGCTGGAGATCCAGGAGACGGAGGCCAAGTACTACCGGACGCTGGAGGACATCGAGAAG
Seq A exon
GTGGGCGCGGCCGCCGGGGCCCCTCCCCAGGCAGGAGCGCAGGGCAGCGGTGACGGGCGGGGCGCAGGCCCTCTCAGGTTTGCGCCCCTGCCCCCGCCTGTCCGGAGGTCGCCCTCACCTGTGCTGGGTCCTCGGGCCCCACGCAGGCTGTGGGCCCCACGCAGGCTGTGGGCTCCGCCCAGGCCAGTTCCCTGGGAGGTCTGGGTCCCGCCTCCCACCCCTCGGCCTCAGCTCGGACCCGAGACTGCCCTGAGCTTGTTTCTGCCGCTCCTTCCAGCCTGAAACTGGGCATTGTTGCCGCTTCTGCTCCTGAAGTGTGCTGAGCTAGGGTCTTTATGTGTGCGTCCTAGCCCAGAGCTAAACGCCTTCTGCATACACTGTCACCCAGGCCGGGCACTGAATGAGCTCTTTGTGAGCACCGCCTCCCTGGGCACCGTCTGCACTCAGCCTGCCCTCCACCAGCCAGGCGTGCAGCAGGGCAGGCCCATAGGCGGCCAGGAGCGCCCCGCACCTGGGGCTCCGCCGGGCCCGATGCTGGCCGTCTCTGCAGCCCTGCTGGCAGACGGCGTGCTCTCCCAGTTGGCTGGTCAGTGCTGTCTCCCCGCCGGCCTACCCGGTTCCTGGAGGGCACGGGTGGGCTTTCTCCCCGCCTCCCGTGAGCACTGGCTCCGTGCCGTTTCCCTGTCACTTGGCACCCTCACGGCAGTGCTTAGAGGCGTGAAAGAACCGCCATTGCTTTCAGGAGAGGCCAGGCCCGCTGAGTCTTTCTTTGCAGAGCAGGGCCAAGTGTGGCCGTCATGGGGTCCCTAGGTGAGTCCCACTGTTCGGGGCACCAGGAGCCTCCAGCCAGGAGTCCTGAGATGCCCCTGGGGACGATGGTGTTTGTAACCCTGCCCAGCCCCTCAGCTGGGTCTCGGGGAGGAAGCAGTCCCAGAGGGGGCACCGCACGGTGGGGGAGAAGTGTTCAGGTGCATCCCGTGGCCACGAGTGCGGGGGACAGCCTTCTGTTCACACAGCGGCTGCAGAGAGGGCCAGGTGGCTGGGACCCTGCGGGAGGAGGGGCAGGGGGAGGGGAGGGTGGCCGGCCGTTCCCTGGGGGACCTCCGAGGCCGGTTCCACATGTGGGCGCCTTGTCTAAAGGCTGCTCCTGTGGCGAGTGGGGCTGGAGTGCGCCCTTCTGATGACACTCGGGGCAGAGGCCCAAGACCTGATGTCAGGAGAGACTCACGGCTGTGTCTCTGTCCTCACGTGTACCCTTGGGCGATGCCCCTCACCTCCCAGGGGAACCTCATTTTCCCCAAATGTCTCAGACAGCGACAGCAAAGCCCGCCCTGCTTGCCTTGGGGTTGAAGTCCAGCGCCGCGTGCAAGGGGCTCCCTGTGGAGCTGTGCGCACCTTGGTGGGGTGGGGGTCCGGTGCTCACACCGATTCCCAGGCCTGACCCCGCCCGGCCCCACACTGGGCTCGCCCCGCAGAGTGACTCTTGGGTCTCCCCAGAAAGCCTGCACTCTCCGGGAGGCACAGAGCCTGCTGTGTGCCGGGCTGAGTGGCCGCCCCGTGGAGAGCCCGTCTGTGGACACCTGGCCCTGTGAGGCCGTCAGTGCCCCCGCCTCCCCTCCGGCTCCAGGCCGTGGTGCAGCGCAGGCTTCTCTCTTGCAG
Seq C2 exon
AACTACGTGACGCCCCTGAGGCTGGTGCTCAGCCCGGTGGACATGGCGGCCATCTTCATCAACCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004511:ENSBTAT00000005932:2
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=PU(11.5=60.6)
A:
NA
C2:
PF0062115=RhoGEF=FE(12.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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