HsaINT0115007 @ hg19
Intron Retention
Gene
ENSG00000188747 | NOXA1
Description
NADPH oxidase activator 1 [Source:HGNC Symbol;Acc:10668]
Coordinates
chr9:140328417-140328858:+
Coord C1 exon
chr9:140328417-140328531
Coord A exon
chr9:140328532-140328654
Coord C2 exon
chr9:140328655-140328858
Length
123 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
GCCTGGGTAACGCCCTGCAGAGC
3' ss Score
4.12
Exon sequences
Seq C1 exon
GGAGCCGGGGGTCGGCCGGTCCTCTACCAGGTGGTGGCCCAGCACAGCTACTCCGCCCAGGGGCCAGAGGACCTGGGCTTCCGACAGGGGGACACGGTGGACGTCCTGTGTGAAG
Seq A exon
GTAGGGTGGGCATGGCCCTTCCCAGGCAGCACCGTGGTGCCCGGGGTGTGGGGGGCTTAGAGCTCGGCCTGTGCTGTGAGCAGACGTGGCACCCAGAGGCCACGCCTGGGTAACGCCCTGCAG
Seq C2 exon
AGCCCGATGTCCCCCTTGCAGTGGACCAGGCATGGCTGGAGGGCCACTGTGACGGCCGCATCGGCATCTTCCCCAAGTGCTTCGTGGTCCCCGCCGGCCCTCGGATGTCAGGAGCCCCCGGCCGCCTGCCCCGATCCCAGCAGGGAGATCAGCCCTAATGATGCTGTGTCCATGATGCTTTTAATAAAAACAACCCCCACTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188747-NOXA1:NM_006647:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.288
Domain overlap (PFAM):
C1:
PF0056419=PB1=PD(1.2=2.6),PF0001823=SH3_1=PU(50.9=69.2)
A:
NA
C2:
PF0001823=SH3_1=PD(47.2=47.2)
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:
TGGCCCAGCACAGCTACTC
R:
TGGACACAGCATCATTAGGGC
Band lengths:
253-376
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)