HsaINT0115005 @ hg19
Intron Retention
Gene
ENSG00000188747 | NOXA1
Description
NADPH oxidase activator 1 [Source:HGNC Symbol;Acc:10668]
Coordinates
chr9:140327905-140328316:+
Coord C1 exon
chr9:140327905-140328059
Coord A exon
chr9:140328060-140328201
Coord C2 exon
chr9:140328202-140328316
Length
142 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TCTGAGGAATCTCTTTGCAGTTA
3' ss Score
4.06
Exon sequences
Seq C1 exon
GGAGCAGGTGCAGGGGGCTCCGAGCCCCTGGTGACTGTCACCGTGCAGTGCGCCTTCACAGTGGCCCTGAGGGCACGAAGAGGAGCCGACCTGTCCAGCCTGCGGGCACTGCTGGGCCAAGCCCTCCCTCACCAGGCCCAGCTTGGGCAACTCAG
Seq A exon
GTGGGCCAGAAAGCCCCCGGTGGCTGCGGTGGAGCTGGGCACCGCCCCGACTGAGGCAGCTGCTGGAAGAGGGGGTGGCAGAGGTCACTGCCCTCCCTGCAGGCCCCACCCAGGAGGCCCCCTCTGAGGAATCTCTTTGCAG
Seq C2 exon
TTACCTAGCCCCAGGTGAGGACGGGCACTGGGTCCCCATCCCCGAGGAGGAGTCGCTGCAGAGGGCCTGGCAGGACGCAGCTGCCTGCCCCAGGGGGCTGCAGCTGCAGTGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188747-NOXA1:NM_006647:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.173 A=NA C2=0.308
Domain overlap (PFAM):
C1:
PF0056419=PB1=PU(49.4=76.9)
A:
NA
C2:
PF0056419=PB1=FE(46.9=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GAGCCCCTGGTGACTGTCA
R:
GTCCTGCCAGGCCCTCTG
Band lengths:
210-352
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)