RnoINT0102404 @ rn6
Intron Retention
Gene
ENSRNOG00000009286 | Noxa1
Description
NADPH oxidase activator 1 [Source:RGD Symbol;Acc:1306687]
Coordinates
chr3:2300190-2300777:-
Coord C1 exon
chr3:2300623-2300777
Coord A exon
chr3:2300305-2300622
Coord C2 exon
chr3:2300190-2300304
Length
318 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CCTCAGGACCCTCTGTGCAGCTA
3' ss Score
3.71
Exon sequences
Seq C1 exon
GGAACAGCTACAAAGGACCCTGAATCCTTGGTGACTGTCACTGTGCAGTGCCACTTTACTGTGCCCCTGAAGGTCCCCAGAGGAACTGACCTGTCCAGTTTTCGGACACTACTGTCTCAAGCTCTCCTTCAGCAGACCCAGAAGGGGCAGTTCAG
Seq A exon
GTAAGTCAGAAAGCTGTGCATGGGGACTCTAAGCTACAGAAGAAAAGGATAGGTCTGAGCTACGAGGAAGCGAGGGTTCTTCTGAACTGGAGAGAAGGCTTTTTATTATTGTTTTGCTCTGAAGCAGTCACTTTTCAGACTCAGGATGGGACGAAAGCTAAGGCCTCCTTAGCTCTATGTTAAGAATCTGGGCAGCCTGGAAGTAAAGGCCAGCCGGGAACAGTGGAGAGCCCCAGAAATTAATTTCCTTTAGGGACAGACCAGGCACTAGGTACTCCCCCTGCACACTGTAGCTCACCCTCAGGACCCTCTGTGCAG
Seq C2 exon
CTACAAAGCCCGAGGAGAGGACAGAGCCTGGGTCCCCATCTCCACGGAGGACTCACTGCAGAGTGTATGGAGGAATGTGCCAGTGAGCCCAAGAGGCTTGCAGCTCCAGTGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009286:ENSRNOT00000012375:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.000
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAACAGCTACAAAGGACCCTG
R:
CTGGAGCTGCAAGCCTCTTG
Band lengths:
264-582
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]