HsaINT0180808 @ hg19
Intron Retention
Gene
ENSG00000155975 | VPS37A
Description
vacuolar protein sorting 37 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:24928]
Coordinates
chr8:17125767-17126465:+
Coord C1 exon
chr8:17125767-17125881
Coord A exon
chr8:17125882-17126364
Coord C2 exon
chr8:17126365-17126465
Length
483 bp
Sequences
Splice sites
5' ss Seq
AATGTATGT
5' ss Score
5.87
3' ss Seq
TCATGTATTGTTACTTTCAGTTT
3' ss Score
7.59
Exon sequences
Seq C1 exon
ATTGCTTCCTCCACAGTTTCCTCAGGAAAAACCAGTGATCAGTGTTTATCCACCAATACGACATCACTTAATGGATAAACAAGGAGTGTATGTTACCTCTCCATTAGTAAACAAT
Seq A exon
GTATGTATATGGGATAATTTATTTCAGGGTAATATAATAGGTGTATTACTTTTCTACTAAATATTTTAGAAATCTGAAATGCATTTAAAGTTTCATTTTGTCATGAGTACTTTTTTTAAAAATTGAATATTTAAGACTACGCCTTAAAGTTCTTACAATATGATATGGTTGATTGTGAAAGATTATAACTTCCATATACTCTAGTATTTACCTTTGAACCCTCAAATTATTGTAAATAGTCAAGTAAGGAAATATTTTGGCTCCATTTTTTATTCAATGGACTTTTAACCTGTTTACTAATCACCAGATATTTATGGTATCGATTCTATAAGAAAATGCTATAACTTGTTAATTGCTAATATCCTTTTTCATTTAATTCTTGACCTGCAAAAGTAAGTTAATATTTAGAGTGACATTATCCTAATGAGACTTTATAATCTTTTTCTGGAAGTGATTTTAAGCGTCATGTATTGTTACTTTCAG
Seq C2 exon
TTTACAATGCACTCAGATCTTGGAAAAATTATTCAGAGTCTGTTGGATGAGTTTTGGAAGAATCCTCCAGTTTTAGCTCCTACTTCAACAGCATTTCCTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000155975-VPS37A:NM_152415:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139001=GVQW=PD(42.1=20.5)
A:
NA
C2:
PF057438=UEV=PD(28.4=67.6)
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:
ATTGCTTCCTCCACAGTTTCCT
R:
AGGAAATGCTGTTGAAGTAGGAGC
Band lengths:
214-697
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)