HsaINT0179926 @ hg19
Intron Retention
Gene
ENSG00000160293 | VAV2
Description
vav 2 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:12658]
Coordinates
chr9:136633564-136634625:-
Coord C1 exon
chr9:136634539-136634625
Coord A exon
chr9:136633719-136634538
Coord C2 exon
chr9:136633564-136633718
Length
820 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCG
5' ss Score
10.05
3' ss Seq
CTGCCCATCTCCCTCAACAGTGT
3' ss Score
8.71
Exon sequences
Seq C1 exon
CTTCCTGTGCTTCCTACAACTTTTCTTTTCTCAGTCCTCAGGGCCTCAGCTTTGCTTCTCAGGGCCCCTCCGCTCCCTTCTGGTCAG
Seq A exon
GTACCGCTGCTCCCCAGGGCGTGGGGGGACCGGGCCTGTGGCAGCTGCCTTGGGAGACCCAGCACGGAGCTGCCCACTGGCCCCACAGCCCTGCCTGACGTGGCCACAGTTGTCCGCAGTCTGGCACTGGGTGGAGGGGAGAAAGGGGCTGGGGAGGCCGGGCAGAGGCTGCTGCGAGCACCTGAGGACACGTCAGGCTTGGCCCTGCCATTGTCACCACCCACCCCCTGTGGACACGCCCACCCTGATGGCCACTTTCCCAGCCCCGTCCACTGTCATTCCTCCTTGTTCATCAAGAGCTTTGCCTCTGGTAGCAGAAAGCAGGTGGCCACGAGGAGGAGCTGTGGGACTTGGGTGCAGGGAGGAGGGGTTTTCAGTCAGCCTTGACCTCATGGCTTTCGGCTGCCAGAGTCAAAGTCCCTTCCCAGCAGCTGTGTGTGTTTCGCCCTCAGCCATGGTCATTGTCACCTGTCTATCAGGATTCTGCATCTGGGCCAAGCTGGTTCCACTGGGTTTCTGGTTGGATTTGGGGGACCACTGGAATGATGATGGTCAAAGCCTGGGCACCTGCTCTTGTCCCTAAGAACATCCTCATTGCAGGGACTTGGATGTGCTGTGTCCCCAGACCCAGAGGGCAAGGGGCCCTGGGATTGGAGGCCAGTGTGTCCCTCCAGAGCCTTTCTGCTTGACATCCTTCCTCTCTGGGTACAGAGCAGGGTTCTGGGCACCAGGGGAGAGACCCAGCTTGGCCCAAGGGCCTCCTGGATCACTGGTTGGGCTCCTCCTGCAGCTGTGTGATGCTGCCCATCTCCCTCAACAG
Seq C2 exon
TGTTCACGCCCCGCGTCATCGGCACAGCTGTGGCCAGGTATAACTTTGCCGCCCGAGATATGAGGGAGCTTTCGCTGCGGGAGGGTGACGTGGTGAGGATCTACAGCCGCATCGGCGGAGACCAGGGCTGGTGGAAGGGCGAGACCAACGGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160293-VAV2:NM_001134398:28
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0765312=SH3_2=PU(76.4=80.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCTGTGCTTCCTACAACT
R:
TCCGTTGGTCTCGCCCTTC
Band lengths:
239-1059
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)