HsaINT0179925 @ hg19
Intron Retention
Gene
ENSG00000160293 | VAV2
Description
vav 2 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:12658]
Coordinates
chr9:136634539-136635623:-
Coord C1 exon
chr9:136635500-136635623
Coord A exon
chr9:136634626-136635499
Coord C2 exon
chr9:136634539-136634625
Length
874 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
TCTCTCTCGCCTCTTTGCAGCTT
3' ss Score
10.46
Exon sequences
Seq C1 exon
GAGTTGGTGGAGTACTACCAGTGCCACTCACTGAAGGAGAGCTTCAAGCAGCTGGACACCACACTCAAGTACCCCTACAAGTCCCGGGAACGTTCGGCCTCCAGGGCCTCCAGCCGGTCCCCAG
Seq A exon
GTAACGCCCCGGCCCAGCCGGCACACCAGCACTCCTCGGAGGGGTCTGCCCTGGCCCACTTCCCAGGGCTCAGATCCTGCCCTCACAGACCCAGACCAGGAGTCCCACCCTGGGGAACACAGCCCCCGCCCCTCCCCCAGCCATCGCAGATGCTGTCATGTGGCATCTCCTGGGCCATGTGACAGGCGGGGACTCTGCACCTGCTCAGAATTGCTACTCTGTGTCTTGGCTTCTTCACCCAGAGACCAGTGGGGGTTGGAGGGGCCAGGTCCAGGCAGAGACCCCTGCGCATGGAGCTGTCACAGGTGGGAGAGAAAAGGGCAGGCCCACCTGTTCCCAGATCCCTCCCTGTGCCCAGCCCCTGGGCCTCCTCTGTGAGAGGCAGCCTGTTTGCAGGTTGGACTCCACAGCTCAGAACAGGGAAGGCCACACGGAATCAGGGGCAGGGGCAGGCCCCGAGCATGCGGCTTCCCGCTCAGGACTCTCTCCAGAGTCACCCCACGTCCTCCAGCCTGCAGGGTCCTGCAGGGCCATGGGTCTCACACAGGCCGAGCTGGACAGGAGAGGAACAGCTGGCCTTAGTGAGCACCTGCTATGTGCCAGGCGAGGGCATGAGAGGAGGTGGTCCCAATTTGCTCTCGAGTACACGGGTGCATAGAGTGGTTCCAGGGTAGCTCAGGTGTGGCCGAGTGGCACCTGTGCCTGGGTGGGGCTTGACAACCCGTGCTGCCCCCTGCCTCCTTTGCCCCCCTGTAGGGCCTCTCCTGCCAAAGGGCCTGCCCCACCCCATGCCCCCCGGCCTGTAGCTGTGCCCACCGTGACTGTGCGTGGATGCCCTGCTGCCCGCCTCACGTTCTCTCTCGCCTCTTTGCAG
Seq C2 exon
CTTCCTGTGCTTCCTACAACTTTTCTTTTCTCAGTCCTCAGGGCCTCAGCTTTGCTTCTCAGGGCCCCTCCGCTCCCTTCTGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160293-VAV2:NM_001134398:27
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001719=SH2=PD(6.7=11.9)
A:
NA
C2:
NO
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:
GGTGGAGTACTACCAGTGCCA
R:
CTGACCAGAAGGGAGCGGAG
Band lengths:
206-1080
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)