RnoINT0102402 @ rn6
Intron Retention
Gene
ENSRNOG00000009286 | Noxa1
Description
NADPH oxidase activator 1 [Source:RGD Symbol;Acc:1306687]
Coordinates
chr3:2300942-2301220:-
Coord C1 exon
chr3:2301151-2301220
Coord A exon
chr3:2301031-2301150
Coord C2 exon
chr3:2300942-2301030
Length
120 bp
Sequences
Splice sites
5' ss Seq
GGGGTAGGG
5' ss Score
3.94
3' ss Seq
AGTGTCTCCTTTATGAAAAGGTG
3' ss Score
5.06
Exon sequences
Seq C1 exon
AGCTCCCAGGTGGAGCAAGCCGGCCTCCAGTCGTCCTCACCCGTGTGTAAGAGGGTCCTGAGCACAAGGG
Seq A exon
GTAGGGAGCGCCTCTTCAGGAGAGCTGGGGCATGGTCACTTGTCCCTTAAGGGAAGTTTAGGGCGGGGCCAGCTACTTGCCAGCCCTTCCTCTACTCCAAAGTGTCTCCTTTATGAAAAG
Seq C2 exon
GTGGTCACATGAGCCCTGGCCTATGGGACAGTTTGCTGGCAACTGGAGGGCCTGTCCCGGGCCCCTCTGAAGATTCCTCTAGTGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009286:ENSRNOT00000012375:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.800
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCAGGTGGAGCAAGCC
R:
CAGCACTAGAGGAATCTTCAGAGG
Band lengths:
154-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]