HsaINT0119106 @ hg19
Intron Retention
Gene
ENSG00000183378 | OVCH2
Description
ovochymase 2 (gene/pseudogene) [Source:HGNC Symbol;Acc:29970]
Coordinates
chr11:7716289-7716903:-
Coord C1 exon
chr11:7716801-7716903
Coord A exon
chr11:7716420-7716800
Coord C2 exon
chr11:7716289-7716419
Length
381 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAA
5' ss Score
4.78
3' ss Seq
GACTTTTTCTTACGTTTCAGATT
3' ss Score
10.57
Exon sequences
Seq C1 exon
ATTGGCTCTAATTCTCTAAGGCTGAAATTCGTCTCTGATGCCACAGATAATGCAGCTGGGTTTAATCTTACCTATAAAGCTCTTAAACCAAACTACATTCCTG
Seq A exon
GTAAAACCATTTACTTTTAATCACATACTATCTCCACCTTCTGTAGAAGCTTAGGCCCCATAGGAATTAGGTGAGTGGCAGGGATCCCTCTCCCAAGGCCCAACTGACTCCACATGGGAGAGGGGCACAGGCCAACTAGAGAACAGGGGGCAGTCTCCCCCTCAACCCTGAGTTCACCCTGCTAGCTCGTAGTGATTGCCCCTCCAAGTGAGTCGAGAGGGCCTGATGAGTTCTGGAGAATCATGCACTACGTCTTTTCTTGTTCGCAGTGTCTGAAAATGCAATTGATATGCATCATTTTCAGGAGACAGGAGGGAGAGCAGTGAGAATTCTTCTTTATTTGAATGGTGCCATCTGTTTGGACTTTTTCTTACGTTTCAG
Seq C2 exon
ATTCAGGTTGCAGTTACTTAACTGTCCTTTTTGAAGAAGGTCTCATACAGAGTCTAAACTATCCTGAAAACTACAGTGACAAGGCTAACTGTGACTGGATTTTTCAAGCCTCCAAACATCACCTAATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183378-OVCH2:NM_198185:12
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:
PF0043115=CUB=PD(25.0=71.1)
A:
NA
C2:
PF0043115=CUB=PU(36.4=90.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGCTCTAATTCTCTAAGGCTGA
R:
AATTAGGTGATGTTTGGAGGCTTGA
Band lengths:
230-611
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)