HsaINT0179931 @ hg19
Intron Retention
Gene
ENSG00000160293 | VAV2
Description
vav 2 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:12658]
Coordinates
chr9:136656905-136660858:-
Coord C1 exon
chr9:136660790-136660858
Coord A exon
chr9:136656992-136660789
Coord C2 exon
chr9:136656905-136656991
Length
3798 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
CTCTGCCTCTTGTTTTCAAGGAC
3' ss Score
9.71
Exon sequences
Seq C1 exon
GAGCTTCTGAGCCATTCTGCGGAACGGCCTGAGAGGCAGCAGCTCAAAGAAGCACTGGAAGCCATGCAG
Seq A exon
GTGTGTGGGTAAACTGAGGCAGGGGAGAAGCCACCGTCTGGCTTAGCCCGTGTTCTTGGACTGGAATTGGGCTCATTAACGAGCCTCAGTTTTGACTGTGGACAGTTTCCTGGGACAGCAGGAGTTGGGGCAGGGCAGGGCAGGGCAGTGGGTGAGACCCACAGGAGGTAGAGGTGACGGGTGGAGGGCACTGCAGGTCAGGTGCCCCCTCAGGTGTCCCGAGTCCTAACCTCACCTGTCCAACAAGACCTCCCTTGAGCCTCCCCTCCCCCTGCTTTTCCCCCAGGCATTGGCCTCCATTCTGGGCTTTCTGGCCCAGTGCTTCTCACTCCCAGCACTGAGGCTTCTGCTTCTAAAATGCCACCTCCGGTGCCATCTCTCAGCTACCTGCCTGGGGAGCTCCTTCGCTCCTGGCTGTTTCGAGGGCCCCCAGCCAGCCATGCCTCCCTCTCTCCCCTTGTCCGGGTGAGCTCAGCTCATGCCACTCCCTTGCTCAGAAACCTTCCGTGGCTCCCTCTGCCCATGAAGCAGGCATGGGCTCCTCACTCTGGCACTCCCGGCCTTCTGCAGGATACTTGCCCCTGATGTCGCAGCTGTGTTCAGCACAGTTCCAGGCAGGTTTGATCCCTCCCAGGCTCCTGCACGTGCCCTGCACTTCCCCGGCTCCGGGTGTTGGCTCAGGTGCACCCTCCTCCTCGTCACCTGGCCACGTCCTGCTCATCCTGCCTTCACTGTGGACAGAACGTTTTCCAGGGAGGATCGCCCCCCACTGGGTTCTGTCCTCAGGGAACTGGCTTCCTCGTGGGTGGCACTCTTCCTCCTGGACACACTTGTTCGTGCCATCTCCTTCCCAGCCAGGCATGTGTCAGCCATAGTCACCTGTGTCCCCAGGCCAGGCACAGCACCTGGCATGTGGTAGGTCCCCTCCAGCTGCATCTGGGTGGAGGGATGACGACCCCCCCCACATCTCCCTCGTCGGGAGCACAGGACACCTCTGCCAGCCCCCCTCAGGGCTGCAGTCCTGCCCTCTGACACCTGGCCCCTGCCCTCTGGGCAGCCCCCCTGGGCTTTGGGCCCCCTTTTCCTTTCCCAGGTACCTCATTTAAGGAGCTCCCTCTGGGTGGGGGAGGGGCTGTAATCTGTCTCTGTCTATAGCTGCTGTTGGGCTGGGACGGGAGTGGGGCCAGTGCTTGGCCGCCGGTGCTAAGAGGTTCTCTGAGCAGGGCTTGTGCTCGGGGAGAAATTTACTCCAAATCCTGTGGGCACTCGTGTGTGGGCACGGGAGGTGGTCCCAGAGACCTTCAGATTCCCGCTCGGCTGCACTGGGCAGCGAGCACCCTGAGGAATGCTCCAGGAAAGCCTCCTGCCATGACGGGCTGACAGAACTTTCTCGGTGTCAGCTCTGCAGCCCCCAAGCCGCCCCTCTCCAACACCTGCTCTGGCCTGTCTGCTGTGAGCCACGGTGTGTGAGCCAGCGTGGATGCGTCCTCGGGGGCTCTGAGACAGTGACAGCAGGTGCAGTGGGCCGTGCACCCGGGCCCTGAGTGTGGTCTTGCGTTTCATACTCTCAGCACTCGGTGTCTGGCTGGCGAGTGGCTCTGAGCCCCTCGACGGGATGGTTTCCCAGGAGTGTAGCTCACGGTGCTGCACAAAGTACTCGGTGACTTGCGGGTGTGCGTCTGCCTTTCTGAGAGCCACCGAACCTCATCATGAAACTTCAGGGCTGGGGGGATTTTAGAAGTCTTTTGATCCATTCCCAATTTATATAGGAAGTCATTCATGCAGCCACTATGGGAGTCGTCGCTGTACCTGGGCTTGATTTCCCCTAGGGACTGAGGGCTCACTCCTTGTACGGCAGCGTCTTTGAGAATCAGCCCCCGTGCCGCTGTGGGCCTGAGGTTTGTCTCCAAGGGAATTGCGGTTTTAGGTCCAAGCTCCATGAGCTGACTGCAGTCCTGCCTCTGTATCAAAGTACAGACATTTCCCTCACCTGCTCATTCATTCGGGCAACTTCCATCTGTTCCTATTTCATGCCAGGCATTGGGCCAGGTGCACGCAGGGGCCGCGGTGGTCACAGTTGTAATGTTTCTGCCTTTGGGAGGGGGGTGGTCCTGAGCTCCAGACTTGCTACTGGGGTCCTTGTCTCTGGGAATTTATTCCTTATTTTAAAGGCAAGTGGACAACGACAAGAAAACGGAACACCCCTTTCAGACAGCGTGCTGCAGCCTCCCCAGGAAGTTCCCTCCTGCGGGGTGGGTGGGGAGCCAATGGTGAGGTCTTCTAGGAACGAGGAAGGGCGGGAGGGATGGGAACCTGCTGAAGACCTGGCTCTGGCTCTGGCTCTGGCCCTGGCTGGTCACTTGCATTTTGGGGAATTCCACCCGCTGCTCTCGGGGGGCAGGGCCAGGACCGCCCACGTGGCCGGCTCCCTTGGGTTCCGCTGTGGGCCAGGTCTGGACACTGCGTTTTCTGGACTGAAGTGGGCACTGCTCTCTGGTGGCCAGCACGAGGATTGCAGCACGGCAGGCAGGCGCCGGAGTGGGGGTGGCCAGACCCGTGGAGAGAGGGACTTCCTGACCCCTCATTCTGTCCAGGCTCCAAGGGGAGGCTGTGGCTTAGAGAGGCTGGGGAGGGGGAAGCTTCCCAAGAACAGGGACATAGGTCAGCCCAAGTCTAGGTGGCTCTTATGTGGCCTGATGTGGCTCCCACACACAGGGCTGCTTCCCTCTATTAGGATGTTTAAGAGGGACCACGTGATGGGGTAGAAAGAAGTGGCACCAGCCAGGAGTTTGGGGCTCTTGGCATCATCACTGACGAGGTGTGGCTCTCGGTCAGTGTGTTCCCTTTCCTGCCTCAGTTTCCTCATCTGTCATGCAGAGGTGATGTTTTTCAGCCCTCCTGTCTCGAGGGCGGCCTCCCCGGCAGGATGGAGGAAGAAGGTCCAGAAACGCCCGGTGCCTGGATGCTGGGTGGGGGGTGGGGGGGGGGGTCCCTTGGGGGCTGAGCTCCTGCATGTATGTGCGTGCATGCACACACACGCTCACACACACACACCCTGCACAGCACAGCTTGCTCACACACACAACCACACAGTCAGACACACCCCACCCGGCACAACCTGCTCACATACACACACACAATAACACACACCCAATCACACGCACCCCACTCAGCATAACCTGCTCACACAATCACACACACAATCACACACACCCTACCCAGTACAGCCCACTCAGACACACATGTTCTCACACAATCACTCATACACATACACACCACAGCACAGCCCGCTCACACACACACACACATGCACCCCACCCAGCACAGCTCACTCACACATACACACAATCACACACACATACCCCACCCAGCACAGCTCGCTCACATACCACACACCCCACCCAGTACAGCCCGCTTATACACACAGTCACACACACCCCAACCAGCACAACCAGCTCACACACACAGTCACACACACCCCACCCAGTACAGCCCGCTTACACACACACAGTCACACACACCCCACCCAGCACAACCCGCTCACACACACCCCACACAGTACAGCCCGCTCACACACACATGCTGTCTCACACACACACACCACAGCACAGTCCGCTCACACATGCTCACACACACACACCCCACCCAGCACAGCTCATTCACACACAGTCACACACCCCCCACCCAGCACAGCCCGCTCACATGCACACACACCCCACCCAGTACAGCCTGCTTACACACACAGTCACACACACCCCACCCAGCACAGCCCGCTCACCTCTGCCTCTTGTTTTCAAG
Seq C2 exon
GACTTGGCGATGTACATCAATGAAGTTAAACGGGACAAGGAGACCTTGAGGAAAATCAGCGAATTTCAGAGTTCTATAGAAAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160293-VAV2:NM_003371:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.116 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=FE(12.6=100),PF084296=PLU-1=FE(14.2=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(4.0=24.1),PF084296=PLU-1=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
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]
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)