HsaINT0179902 @ hg19
Intron Retention
Gene
ENSG00000141968 | VAV1
Description
vav 1 guanine nucleotide exchange factor [Source:HGNC Symbol;Acc:12657]
Coordinates
chr19:6829797-6832211:+
Coord C1 exon
chr19:6829797-6829929
Coord A exon
chr19:6829930-6832101
Coord C2 exon
chr19:6832102-6832211
Length
2172 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
TGAGCTCTGCTTCCCTGCAGTGG
3' ss Score
7.97
Exon sequences
Seq C1 exon
GTATGCCTTCCTGCTCGACAAAGCTCTACTCATCTGTAAGCGCAGGGGAGACTCCTATGACCTCAAGGACTTTGTAAACCTGCACAGCTTCCAGGTTCGGGATGACTCTTCAGGAGACCGAGACAACAAGAAG
Seq A exon
GTGGGGCTTTGACGCCGGAACTATGGGGTCCTCCACGCAGTCGGCAGCTTAGCCCTCTCCACTTGGGCATGTGCCTGTTTGCCAGACTACATCTACATGGAAGTGTGTGTTAATCCACTCAACAGGTGTTTTTTGTTTGTTTGTTTTGTTCTGTTTTTTAAGATGGAGTCTCGCTCTGTCGCCAGGCCGGAGTGCAGTGGCACAATCTCGGCTCACCGCAACCTCCGCCTCCTGGGTTCAAGCGATTCTCCTGGCTCAGTCTCCCGAGTAGCTGGGACTACAGGCACACACCACCACGCCCAGCTAATCTTTGTAGTTTTGGTAGAGACAGGGTTTCACCATGTTGGCCAGGATGGTCTCGATCTCTTGACCCCGTGATCCACCTGCCTCGGCCTCCCAAAGTGCTGGGATTATAAGCGTGAGCCCACTCAACAGTTTTTAAATTGAGCACCTACTATATCCAGGGCACTCTTCTAGGCACTAGGACTAAAATGGAAAGCAAAACAGAATTTTCATTTTGTTTGTTTGTTGGTTTGTTTTTGAGACAGTCTCACTCTGTTGTTCAGGCTGGAATGCAGTGGCACGGTCTTGGCTCACTGCAACCTCTGGCTCCCAGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACGGGCACCCACCACCATGCCCAGCTAAATTTTGTATTTTTAGTAGAGACGAGGTTTCACCATGTTGGCCAGGCTGGTCTCAAATTCCTGACCTCAAGTGACCTGCCCATCTTGGCCTCCCAAAGTGCTGAGATTACAAGCGTGAGCCACTGTGCCCAGCTTATTTTATTTCTTGTATGGTACTTGCGTTCTTATGGGATGCTTTCTACAAAGAAAATAAAGTAGGTGGCTGGGTGCAGTGGCTCATGCCTGTAATCCCAGTACTTTGGGAGGCCGAGGTGGGAGAATTGCTTGAGCCCAGGAGTTTGAGATCAGCCTGGGCAACATAGGGAGATCCCCGTCTCTACAAAACATAAAAAAAAATTTAGCTGGGCTTGGTGGCACATGCCTGTAGCCCTAGCTACATGGGAGGCTGAGGTGGGAGGATCGCCTGTGGCTAGGAGTTGGAGGCTGCAGAGAGCTATGATTGCACTACAGCTAGGACCACAGAGTGAGATCCTGTCTCTATTAAAAAATAAATGAATGAAACAGGAGATGTGGCTGTGGTAGGTGAGGGTGGGAGGGGGAGCTATCTTACCTCCATTGTTCAGGGACATTCTCTGTGGAAGTGACATTTAAGCTGAGACCCCTCTCCCTCTCGGCTCTTCCTTACTTCCTTCTGCTTTTTCTCCTGTGAACTCTTCCGTTCGCTTCAGTTTTTGCCCTGGAGTTCCCCCTGTGCTCTGGTCTGTGGCTTCTCTATTTCTTTTTTTGAGACGGAGCCTCGCTCTGTCACCAGGCTGGAGTGCAGAGGCATGATCTCGGCTCACTGCAACCTCCGCCTCCTGAGTTCAAGAGATTCTCCTACCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCCGCCACCACGCCCAGCTAATTTTTTTGTATTTTTAGTAGAGACGGAGTTTCACCACATTGGTCAGGCTGGTCTCAAACTCCTGACCTCGTGATCCGCCCACCTCAGCCTCCCAAAATGCTGGGATTACAGGTGTAAGCCACCGCGCCCGGCTGGCTTCTCTATTTCTCAACCTGTGTCTCCCTCGAGGAGCCAGTTGCTGTCTTGTAACTGCCTGCTTACAGCATCCGTCTCTCCTACCAGGCTGGAGCTCTGGGGACCACATCCTATTCACTGCTCTGTCCCCAGCTCCTAGCAGTGTCTGTTTCTCAGCAGGTGCTGCACCAATGCTTTGTTGAACAGAAAAATCGATGATGAGTGACATGCTGTGTCTGGTGTGTGCTTCTGCAAAGGGGAGTGTGTGTGTGTGTGTGTGTGTGTGTGCATGTGCACGCCTGCGTATGTGGTTTTGGGTTTATGGTTGTGTATTTGGATATCCTAGAAAGCCCTTTTACAAGGATATCCATGCATGGTGCTAGGGGCATAGAGACTGTCATGGGCTTGCCTGTTCCCTACAGAGGGAGGGGTGGGTGGGTGTGTGCTCCCACCCTCTGCGGGGGCAGTGCCTTCAGTCTGAGCTCTGCTTCCCTGCAG
Seq C2 exon
TGGAGCCACATGTTCCTCCTGATCGAGGACCAAGGTGCCCAGGGCTATGAGCTGTTCTTCAAGACAAGAGAATTGAAGAAGAAGTGGATGGAGCAGTTTGAGATGGCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000141968-VAV1:NM_005428:14
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:
PF0016924=PH=FE(43.1=100)
A:
NA
C2:
PF0016924=PH=FE(35.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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
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)