HsaINT0179957 @ hg19
Intron Retention
Gene
ENSG00000134215 | VAV3
Description
vav 3 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:12659]
Coordinates
chr1:108298049-108299951:-
Coord C1 exon
chr1:108299883-108299951
Coord A exon
chr1:108298136-108299882
Coord C2 exon
chr1:108298049-108298135
Length
1747 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CCCTTTTCTTTATTGTCTAGGAC
3' ss Score
11.09
Exon sequences
Seq C1 exon
GAACTGGTCAAACATACCACTGATCCGACTGAGAAGGCAAATCTGAAACTGGCTCTTGATGCCATGAAG
Seq A exon
GTAGGGCAGATTCATCAGTAATTTGTTTGTATTTTTTATTCTTGCCTAAAGACAATGGAATTCAAATTGCATACACACACACACACACACACACACACACACACACATATACACACATATATATACACAAACATATATATATACACATAAATAAAATATTATGACATGCCTATGTATAATACACATTTGTTTTTAGTGGAGAAAACTGGATTTTTTTTTTTTTACTGGAATAGTTATCCTTGCATGGATTTAATTGTTAGACAACGCATAAAACTAAGAAGTATATTAAAATCACTTAGATACAAGTATAAAAACTTTCATAACCATGGGGAATTATTTAATATCATATTTTTTTCCCATTCTTTTCATGGTGACTAATAGAAAACGTTGGCTTGTGTAAGTCGTAGGCCAGCTGGTGGCTTCAGAACCCCATGTAACTTATTTTCCTCATATGAGGATATCTGCTAGGTTTACCCTTGTGGATGCTATGGCTTCATACAAGTGAATTTCAGTTTGTTCAGTTTTCAGGAAAATACGAAAATTATGAATAGAAAAGACAGACATTTTGAACATACTGGGGAATATGTAAAACCTCAGTTTCCACATTATGTTAAATAAAAATGACTTTGAAACGAAATAATATTTGCCAATAACTTAAAGCGTAGGCAAATATTTGTTCTTTAAAACAAAATGGCAAGGTGACCCTGCTCAGAGCAGTGCATAATTACTTAACTGTGTCCTTGTACCAATTCGTGTTAGCTTCGCTGTTTGGCTGATTGTCTACCACTAACAGGAAACACCACATAATTATTTATTATTATTATTAAAAAGTCAAACCAAGTTCCAAATTTTAAAGAAGTCGTTTATGGATCTATCCTATGAAAAGTCAGACTTCCATTTAGAACAAAGTTAGGAACTGCTTTTTGCAGAGTTCTGTCCCTACTGTTGCAGATGAATTTAAGAGGGTAGAGAAAAAAGAAAAAGAGCTCAGAAAACAGGAAAATCTGGAGCACATGTAACAAAAATAGCTAGTTACAGTATGGAAAGATTAGCTAATGTTTCCTCAAATATGAGAAAAGACATTTTAAAATAGGTGAAGGCACATGGAAAGACACGGCCAGCATTTTATGTTCACTTTAATTCATGAATTAAATTTAGTTCCAGCATGTTGTGCTATTTAGTTCCTCACCTCTCCTTTACTTCTCCTGAATCCATAAACGGGTTAACTCTTTAAAATTGAACCGGTTTCCTTGACCGAATGCTCTCAGGAACCAAGAAGACTAGCCGATTGCAAAAATAAAACAGTCTTGCTAGATTCATTATCTAACTTTTGGTTACTTTTCTCATGCTAATCGTTCATGATTGCCCTTCTTCTAACCTGTGTAAAAATATCATGCTCTCAAGGTCAGTAATTAACGTGCTTGGAATTTCTATTCTTCCGACCTAGTTTTCTTTTTGTTGCTCTATTGTGGTATATTTTGTTTTGTCTTTTAAGGCAACAACATCCTGACTCTTCTCAGTGGTGTGACAAATGACAGCTCTTCAGTCTTCCCAGCTGTACTTCAGACATTTTAAAATTGCCTCTGTGATGCAGCTTTGATTGACTGGGCATTCATTTTACTGTCTTTGAAAAGTTACAGTGGTTACTTTTACCACTAATGGAATTAATGATGTGTTTTCTTTCAAAGCAGTTTGCATCTCTAATCTTAGTGTGCCTTCTTTTTCTACCCTTTTCTTTATTGTCTAG
Seq C2 exon
GACTTGGCACAATATGTGAATGAAGTGAAAAGAGATAATGAGACCCTTCGTGAAATTAAACAGTTTCAGCTATCTATAGAGAATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134215-VAV3:NM_006113:11
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=0.000
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=FE(12.6=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(4.0=24.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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)