HsaINT0115010 @ hg19
Intron Retention
Gene
ENSG00000188747 | NOXA1
Description
NADPH oxidase activator 1 [Source:HGNC Symbol;Acc:10668]
Coordinates
chr9:140323334-140323835:+
Coord C1 exon
chr9:140323334-140323468
Coord A exon
chr9:140323469-140323727
Coord C2 exon
chr9:140323728-140323835
Length
259 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGGATACCCACCCCCTCCAGAGA
3' ss Score
5.11
Exon sequences
Seq C1 exon
GTGCTACACAATGTGGCGTCGGCACAGTGCCAGCTGGGGCTCTGGACAGAGGCGGCCAGCAGCCTAAGGGAGGCCATGTCCAAGTGGCCGGAGGGGTCCCTGAATGGCCTGGACTCAGCCCTGGACCAAGTGCAG
Seq A exon
GTGAGGAGTGCCAGCCCGGTCATGGTTTTGGGCTGGTGCCTACCAAAGCTCCTCAAGACCAATTTCATGAGATGAAGAAGCTTCCGGAGGGAGATGGCCCTAGTGCCCAGTTTCGGGTGCCAGGCGGGGGCTTCCTGTGACCTGCGGGAAGGGGGTGGGGGGCCCAAGCGGCCCCTTCTGCTCCAAGGCACAGGGGCTCTGCGGCTGCAGGCCTGGTTGGTCACCCCGTCTGCATCTGCTGGATACCCACCCCCTCCAG
Seq C2 exon
AGACGGGGCTCACTGCCGCCACGGCAGGTCCCCAGGGGCGAGGTCTTCCGGCCCCACCGGTGGCACCTGAAGCACTTGGAGCCCGTGGATTTCCTGGGCAAGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188747-NOXA1:NM_006647:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.417
Domain overlap (PFAM):
C1:
PF131761=TPR_7=WD(100=75.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACACAATGTGGCGTCGGC
R:
CTTGCCCAGGAAATCCACGG
Band lengths:
234-493
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)