HsaINT0067737 @ hg19
Intron Retention
Gene
ENSG00000165219 | GAPVD1
Description
GTPase activating protein and VPS9 domains 1 [Source:HGNC Symbol;Acc:23375]
Coordinates
chr9:128064262-128067428:+
Coord C1 exon
chr9:128064262-128065105
Coord A exon
chr9:128065106-128067341
Coord C2 exon
chr9:128067342-128067428
Length
2236 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
ACCACTGCTTTGGGTTGCAGGTA
3' ss Score
8.85
Exon sequences
Seq C1 exon
TGCTGAAGCTTCCCCTGCTGAATGTTGCCAACATGCCAAAATTTTGGAAGATACACAATTTGTTGATGGGTATAAGCAATTGGGATTTCAGGAGACTGCTTATGGAGAATTCTTGAGTCGATTGAGGGAAAATCCTCGTCTTATTGCCTCCTCTTTGGTTGCTGGAGAGAAACTTAATCAGGAGAACACACAAAGTGTTATTTACACAGTTTTTACCTCCCTGTATGGCAATTGCATCATGCAAGAAGATGAAAGCTACCTCCTTCAGGTTTTGCGATACTTGATTGAATTTGAACTTAAAGAAAGTGACAACCCTAGGCGACTTTTGAGGAGAGGAACTTGTGCCTTCAGCATCTTATTTAAACTTTTTTCTGAAGGACTGTTTTCTGCCAAACTTTTCCTCACAGCCACTTTACATGAGCCAATTATGCAACTGCTTGTTGAAGATGAAGATCACCTGGAAACAGATCCAAACAAGCTAATTGAGAGGTTCTCTCCATCTCAGCAGGAAAAACTCTTTGGAGAGAAGGGCTCAGATAGATTCAGGCAAAAAGTTCAAGAAATGGTGGAGTCCAATGAAGCAAAGCTAGTGGCTTTGGTGAACAAATTTATTGGTTATCTCAAACAGAACACATATTGTTTTCCACATAGTTTAAGGTGGATCGTGTCTCAGATGTACAAAACCCTCTCCTGTGTAGATAGGCTGGAAGTTGGGGAGGTCAGGGCAATGTGTACTGATCTCCTGTTGGCCTGCTTCATTTGTCCTGCAGTTGTCAATCCAGAACAATATGGAATAATTTCCGATGCTCCTATTAATGAAGTAGCACGATTTAATCTGATGCAG
Seq A exon
GTATGCTTTTGCTATTATTATTAACGTGGCATTTAGTTTAAAATTCAGTTGATTGGGCTGTGGGGGTGGGAACAAATAATACGATGACAGTATTTGTATATTCTTACAACTTTTTCTCAACCAGTCCTAAGTATTTGCATCTTATTAAATAAAAGCAGTAATACTGGGATTTAAAATTATTGCGGTCACAAAACATTTTGTCTTTGTCTGTTTTTTGAGACAGGGTCTCACTCTGTTGCCCAGGCTGGAGTGCAGTGGCGCAATCTCAGCTCACTGCAACCTCCGCCTCCCGGGTTCAAGCAATTCTCCTGCTTCAGCCTCCTGAGTAGCTGGGATTACAGGCGCACACCACCGCCCTGGCTAATTTTTGTATTTTTAGCCATGGGGTTAAAATTTAGGTCAGGCTGGTCTTAAACTCCTGACCTCAGATGATCCGCCCACCTCGGCTTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACTCCTGGCCTTGGGTGATTGTTAAAAAATGATTAGCTCAAGCTGGGTGTGGTGGCTCTCACCTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGTAGATCGTTTGACATCAGGAATTTGAGACCAGCCTCAGCAACATAGTGAGACCCCCAACTGCCCCATATCTATTAAAAAAAAAAAAAATTGGCCGGGTGCGGTGGCTTACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACCTGATGTCCAGAGTTTGAGACCAACCTGACCAACATGGAGAAACCCCATCTCTACTAAAAATACAAAATTAGCCAGGTGTGGTGTCACATGCCTGTAATCCCAGTTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGAACCCGGGAGACAGAGGTTGCGATGAGCTGAGATTGCACCGTTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCAAAAAAAAAAAAAAAATCAGAAAAAATGATTAGCTGTTTTTAATGATCAGTTATATCACCTTGGGATGTTTAGCAATTCACTGTATAGAAATGCCTGAAATAAAATTTTTAACTTTTTTTAATGTTTATAAATTTAAAAAAATTATAATATGGAACACTTCACAAATTTGTGTGTCATCCTTGCACAGGTGCCATGCTAATCTTCTCTGTAGAGTTCCAATTTTAGTATATGTGCTTCTGAAGCGAGCACAAAATTTTTGACATGAAACAGTAGGTTTTTTTTTGTTTGTCTGTTTGTTTTGAGATAGTCTCACTCTGTCACCCAGGCTGGAGTACAGTGGTGCCATCTTAGCTCTCTGTAGCCTTTGAACTCCTGAGCTCAAGTGACCCTTCTGCCTCACCCTCCTGAGTAGCTGGGACTACAGGTGTGTACCAGCACACCTCGCTCATTTAAAAAATGTTTTTGTAGAGACAGGGTCTTGCTTTGTTGTCCAGGCTGGTCTTGAACTCCTGGCCTCAGGTAATCCTCCTATTTTGGCCTCTCAAAGTGCTGGGATCATAGGCGTAAGCTACTGTGCCTGGCCCATGAAACACTTAAATTTATTCTTATGGTAGATAATGTATTTGTAGTTTTTTTTGTTTGTTTTTTTTGTCATTCCAGTAGAGATCAAATTACATATTTTCAGAATCAGTAAAAAGGGGGCTTGTCCCAGATATTAAGAAGAGGATGTTGTAATAACTTTCATCATTAGCCTTTAAAAAGAGTGCAGTAACAAATTTTGCCAGTAAGGTACTTGTTCTATGAATTAGTATTTACTTTATCAAACCAGCTTATGTTAGGAATCATTTGCTTTTAAATCTAGGGAAAAAATTATACCTTGATTGCTTTGTGAACGCTATAAGGTAATGTTCTTAATATTAACTTAAGGCAATTTAATGAATGAGTCAGCTTTTACAAATTAATTTAAAAAGCTCTAAACAAATGAAAAGTACAATGTCAGAAACAAATGTATTGTGCTTTTTTTCCCTAATGTTGATATCTTATGTGTTAAAGAGAAATTAAAGCAAAAATTTATACTTTCTCTAACTCTTAATCTAAAAATAGTAAAAGCTGACATAAGGTACACATTTTTTGGGGGATACTATTTCATATGCCTGGTCAGGTGATATGAATAGTATTATGAAACAGATTTTTAGAACAGAATAGACGTGCTTGCTTTCATAGAGACGTATTTGTGAGTATCTGTCTGTAGCTTATGTCTCCCTACCACTGCTTTGGGTTGCAG
Seq C2 exon
GTAGGCCGCCTTTTGCAGCAGTTAGCAATGACTGGCTCTGAAGAGGGAGATCCCCGAACAAAGAGCAGCCTTGGAAAGTTTGACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165219-GAPVD1:NM_015635:3
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=0.145
Domain overlap (PFAM):
C1:
PF0061614=RasGAP=PU(94.6=67.7)
A:
NA
C2:
PF0061614=RasGAP=PD(4.5=31.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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
- Pre-implantation embryo development
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)