HsaINT0179917 @ hg38
Intron Retention
Gene
ENSG00000141968 | VAV1
Description
vav guanine nucleotide exchange factor 1 [Source:HGNC Symbol;Acc:HGNC:12657]
Coordinates
chr19:6821791-6822329:+
Coord C1 exon
chr19:6821791-6821859
Coord A exon
chr19:6821860-6822220
Coord C2 exon
chr19:6822221-6822329
Length
361 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGT
5' ss Score
8.49
3' ss Seq
CCTGACCTCACAACCCACAGCGA
3' ss Score
5.8
Exon sequences
Seq C1 exon
GCCCTTCCCCACCGAGGAGGAGAGTGTAGGTGATGAAGACATCTACAGTGGCCTGTCCGACCAGATCGA
Seq A exon
GTGAGTGCTCAGGCCTGTGGCCGCACAGCTCACTGGAGCACCGTCCTGGGGGTGGAGGGTGTGGGGGGACATGGCCTTGCCCTCCGGGAAATAAGGTCATACCCTGGTGTCTGGGGCACACAACCTTGCCTGAGAGTCTGGGGAGACACAGCCCTGCCCTGGGGTCTTGGGGGACATGGCACTGTCCTGGGGTCTTGGGGGACATGGCCCTGCCCTGGAGCTTGGAGGGACATGGCCTGCCCTTGGAGTCTGAGGTCCCACCCTTGGAGTCTTGGGGGGACAAAGCCCTGCGCTGGGGTCTGCGGGGACCCTGCTGTGATCTGGGAGAGGTCCAAGGGATCCCTGACCTCACAACCCACAG
Seq C2 exon
CGACACGGTGGAGGAGGATGAGGACCTGTATGACTGCGTGGAGAATGAGGAGGCGGAAGGCGACGAGATCTATGAGGACCTCATGCGCTCGGAGCCCGTGTCCATGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141968:ENST00000602142:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.367 A=NA C2=0.286
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062115=RhoGEF=PU(8.3=37.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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