HsaINT0179950 @ hg19
Intron Retention
Gene
ENSG00000160293 | VAV2
Description
vav 2 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:12658]
Coordinates
chr9:136674162-136677338:-
Coord C1 exon
chr9:136677236-136677338
Coord A exon
chr9:136674261-136677235
Coord C2 exon
chr9:136674162-136674260
Length
2975 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
CTCCCCCTTCCCTCCTCTAGAAA
3' ss Score
11.36
Exon sequences
Seq C1 exon
CGAGCATGACCTGGGGGAGGACATCTACGACTGCGTCCCGTGTGAGGATGGAGGGGACGACATCTACGAGGACATCATCAAGGTGGAGGTGCAGCAGCCCATG
Seq A exon
GTGAGCCCTGCCCCGCTCCTCCCTCCCTTCCCCTCCCTTCCCTCGCAGAGCAGCCTGGCCCTTGCTTAACACAATACCGAGCTGTCCCCATGTCTGAGCCACCGAAGGGGAGCTGCTCTGGGTGCAGGGGGACGTCCAGAGGTGCACCCCTTGGTCCTTCCCAGTCCCCACGGAGCTCCTCTGAGGAGCATCCTTGGAAACCCTGGCTGACTCCTGGTCCACTCTGTGCCCTTCCTCTCTATGGAGATGTTCTCAGGTGCCCAGAGATGACACCACCACGGTCATGACCCCCGCCCGTGTTGCCATGGGATTCTCCTTCCAAGGGCTTGCAGGCCCCTCAGTTGTTCCTGCCCAGGGAGCCTTAAGATAGTAACTTGGCGCATGGTCTAACAGCACGCGTCATTTTCCCCCTTTGTGTGGAGAATGATGAGACCAATATTGGCCCAATTAGCCAGCTGTGCGTCTTTTATGTTTGGAGGATGTTTATTTCCAAGCAGGCACTGGCGAATAATCTCTCGGACGCCAGTTTGCTCCGCGTGGGTTTATTGCCAGCAGCTGCTATGTGGAAGGTGGGGATCCAGCGGAGCTGGAATGAGGAGACAGGGACCTGGTAGGGCAGGTCACAGGCCCTCAGACCCCCAGGCTCCCAAGAGTGGGTGAGATGCCACTTGCCAACCGTGGAGGCTTTTGATGCCATTGGCTTCCCCCAAAGAAATAGGAAATTTCTCAGAAAGCTGATTTCAGTGTTTTCCTTTAGTGTGGGAGTAACCAGCTGGTGGTGGAGAAGCAGAAAGCTGGGGAAACAAATCCCTAAAGAGGCCTTGCCCACTCTGCTGGCATCCTGCTGGGAGAGACAGGCAGGTGCAGGGCTGGGGGTCTCACAGCCCCCAAACTGACTGTTAAGAGCAGGTTTCTCTGCTTGTCCTCGAAGGGTCTCGACTGAGTTTTGTTCCCCGCCATAACCGGGGGGTCTCCCCCGAGGGATGGTGGCCCTTTGTGGAGGCAGCAGGGCCTCCAGTTTGCCTTCCCGGGGAGCCTGGCTGGGTAGCTGTTAGGGCTGGAAGACTGAGCCATGGCCCTGCTGCTGGGGGCTCCCCTCGCCTCCCCGGAGCTGGCCTGAGAGGTCCCGAGGCGGCCGGCGAGCCGTCTGGACTTGGGAATGAGCTCTGACTGGTCAAGGCCAGTTCACTCCCCAAGTTGTTTGAAAGCTGGGCGTCCTGCAGGTAAACTTCAGCAGGTGGCTGCGTTGCCTGTGAGGTTGTGTGGGGGATCCTGGCCCTGGATCCTGCAGGCTCTCTTTCTCGAGACCCCCATCCATGCCTGGTGAGAGTGGGTGCTCCCTGGAGCCCGCTGCTGTCCCTGGTTCTGAAGGTCTCAGACCTCTTTGAGAAAACGCATGTGAAAGGACATGGAGTGTCCACAGAACCTGCCAGGCTGGGGAACAGCGCTGCCTATGTCCCGCTCTGCACAGTGTCCTCATGCCCAGCGCTGGTCCCGCTGGTCTCGAGCTGTCCAGTCCATCCAGGCAGGGGCTGGGGGCAAGGGGCAGTTCCTGCTTCCTGCCAGGGTCCTCTGAGATAAAACAGCTGCTCCATGTCCTTCCCTGTCATGTCTGGAGCTCTCTGAACAGCCCCAGTGGAAGGTAATAGAGATGGTGACTTCCCCAAAGGAAGAAGAAGCCAGAGGATGGCAGATGCCATTTCCTGAGCCTGGGTAGGGGGCTGCTATGGGAGCTCTGGCCCATGAGCCATCGCCCTGCCCAGCTGGGCAGCACGAGGGGCCGTGATGTGGCTTTGGGTCTGTTGGCTGGTTGTGGGGTGGCGTTCCTGATGTCCCAGGCCCAGCTTGCCAGGACAGTGTGGGCCCTGCTAACCGGCGCTGTTTCTGGTTCTTTCTCCACGCTTGCAGATTAGATACATGCAGGTGAGTGGCCCGGAAGGGGAGGCTGGGGACGTCCTGCCTGCGCCGTCTTCTTGACCTTTCAGGGAGGTCTCAGACCTCTCTGAGAAAACTCGGGACCCTGCCCCCAGGAAGACATGGTCAGGCACACATGACTTCAGGCATCAGAGACCCTCGGCACCCCCGTGGTCCTGTACCCACAGCCCCATCTTGCACGTTGCCTTAGAGACCTGCAGCCTGGCAGACCCAAGCGGACCCTTGGGGATTTCTTGGAGGATGATGATGGTCTTAGGGCCGACACGAGCGCTGTGGGTCACAGCACCATTTCTCCAGAGCCTTCTGACAGGTGGGGTTTACCCAGCCTAACAGAACCTTAAAGACAGTGTTGGGAAAATCCATCACTGCCCCACAGTGACCCCACCTGTCACCTCACCCTGGACCATGGGCCAGGCAATCTCTAATCCTGTCCCGGCCACATTCCACCAGAGGTGGGGGCAGGCCCTGCTCTGGAGGAGGCTCCAGGGACCCTGCTGGCGGTGGGGGGTCATCTCAGGCCCCCTGGCTAGAAACCAGTGGACACTCAGGGGAAGAGTCCAGCCTGCAGGTGGCTGTACTGACATGTGCAATGGTGGATGTGGTCTGCATGGAGCCGAGCACACAGTCTGCCACGTAGAGAGGACTTATGCACACAGTAGGTGTTTTAGCAAGTCACTCCTGCTCCTGTGCTGGAGGGGGTAGCTTCTGAGGCCCTCACCCCAGTCTGGTGAAGAATCGAGATTCAGAATCAGAGGAGTAGGAGCCTGGGATTCTAGAAGGCTCTGCCTCCAAGCCTTCCTTGGCACTGTCCCCACGTCACATCCCCTCCCCGTGCGTCAGTTTCTTCATCTGCAAAATGAATGGGAAGGGGTTGGCCCTCTCTGTCACCCATCTGGCTGCAGCACTGCACACTCAGTGACCTCGTGGCCAAACCCAAGGAGTCCTCTTTTGTGGAGGTGTCCGGGTGTCGCGGTGCAGATGTGCAGGTGGCAGGTGGCCGGGCCCATGGGGTCCTGCTGACTCCCCCTTCCCTCCTCTAG
Seq C2 exon
AAAATGGGCATGACTGAAGATGACAAGAGGAACTGCTGCCTGCTGGAGATCCAGGAGACCGAGGCCAAGTACTACCGCACCCTGGAGGACATTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160293-VAV2:NM_003371:5
Average complexity
IR-C
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:
NO
A:
NA
C2:
PF0062115=RhoGEF=PU(11.5=60.6),PF084296=PLU-1=PU(8.5=54.5)
Main Inclusion Isoform:
NA
Other Inclusion 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
- Genotype-Tissue Expression Project (GTEx)
- 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)