HsaINT0179945 @ hg19
Intron Retention
Gene
ENSG00000160293 | VAV2
Description
vav 2 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:12658]
Coordinates
chr9:136635500-136637168:-
Coord C1 exon
chr9:136637081-136637168
Coord A exon
chr9:136635624-136637080
Coord C2 exon
chr9:136635500-136635623
Length
1457 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
TGAGTGTGTACGCCCTGCAGGAG
3' ss Score
6.46
Exon sequences
Seq C1 exon
GTTCAATGATGAGGTGAAGCACATCAAGGTGGTGGAGAAGGACAACTGGATCCACATCACAGAGGCCAAGAAATTCGACAGCCTCCTG
Seq A exon
GTAGGTGACTTCTGGCTCCGGCCGGCTCCCACCCCAGCCACAGGGGACAGGTGCTTCCTCCCGGCCCTGAGCGAGTGGCCATGTTTTCTGTGAGGATTGATTCTTCCCAGTGTGGCCAAGATTTAGGGAATTGGTTTTTAAGGCACTAGGACAGCTAGAGCTATGTCCCAGCCTCCTGAATTGGGACTTCTGACCCCCAAAGCCTGAGCAAGGTGGTTGACCCTGGTAAACAGTGCAGGGGTGGGGTAGGGGCAGCCCAGGCCACCAGCAGCCCCAGATTCCTCTCATGCCCATCCTCCTGCGAGAGCAGAAACTGACGCCCAGTGGGGCTTCCAGCTGGGGCCTGGCCGGGTAGCCCCATTACACATGTATGGCTTCAAACAGCTTCTTCTCCGACTCACCCCCACCCTCTGTCCCAGCCAGAATGCAGTTAGAGGCATAGTCCTTGAAATGATTTTAAAGTTATGCCTACATTTTCTTTTCTTAATTACAAAAGTTGTATATATTGAGAACTCCTGATTAGAGCCCCCAGGCTCTTAGCTTCCCCGCTATGGCCACAGAAAAGCACAAGGTCAAGCAGAAATCCATAATCTCGGGCTGAGCGTAGTGGCTCATGCCTGTAATCCCAGCACTCTGGGAGGCCGAGGTGGGTGAATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGCAAAACCCCATGTCTACAAAAAATACAAAAATTAGCCGGGCATGGTGGCACACGCCTGTAGTCCCCCCTACTTGGGAGGCTGAGGCACGAGAATTGTTTGTACCCAGGAGGCGGAGATTGCAGTGAGCCGAGATTGCGCCCTTGCACTCCAGCCTGGGTGACAGAGTAAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAGAAAATCCATAATCCCATCCCCACCTCCAAAAAAACAAAAGCGGAAACCAGCGTTGGCATCTCAGTGAGTCCTCAGGACCTCTCTACACACAGCTTGGGTCTGGTTTCTATTATATAAATAATAATGCTGGCAATGCCCCAGCTGATTTTTAGGCGACTTTTCAAGGCCACAAACATTCACCATTAATGAATCTTCCCCTGGCTGATGGCCGCATGGCTCTCTGTCACTTGGAGATCCTGTTATTTCTAGAAGCTTACCCCAAGTGCTGGGTACAGAGTGTTTCCATTCTTTCCTTTATAAAGGCTGTTGCAGTCAGTGTCCGTGCTGGTCAGTCTTGGCATCTTTTGCAGATTATTTTTTCTAGAAACATTTGGGGGAGTTGCTGGTACCTTCGAGGTACTGACCACCCACCATGGGCTGGCGGGATGTGGGGAGTTCTGAGGAGTCCAGGAAGCTAGTCTCCCCCACATGAACCAAGAGGTGGGAGAGGGAGGCCAGGTCACTGGGGGAGGACTTCCTGGAGGTGGCAGCAGCTGTCAGTGAGTGTGTACGCCCTGCAG
Seq C2 exon
GAGTTGGTGGAGTACTACCAGTGCCACTCACTGAAGGAGAGCTTCAAGCAGCTGGACACCACACTCAAGTACCCCTACAAGTCCCGGGAACGTTCGGCCTCCAGGGCCTCCAGCCGGTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160293-VAV2:NM_003371:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.031
Domain overlap (PFAM):
C1:
PF0001719=SH2=FE(38.7=100)
A:
NA
C2:
PF0001719=SH2=PD(6.7=11.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAATGATGAGGTGAAGCACA
R:
CTGGAGGCCGAACGTTCC
Band lengths:
190-1647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)