RnoINT0102396 @ rn6
Intron Retention
Gene
ENSRNOG00000009286 | Noxa1
Description
NADPH oxidase activator 1 [Source:RGD Symbol;Acc:1306687]
Coordinates
chr3:2299691-2300087:-
Coord C1 exon
chr3:2299973-2300087
Coord A exon
chr3:2299859-2299972
Coord C2 exon
chr3:2299691-2299858
Length
114 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
3' ss Seq
TACCCAACATGTCTCCACAGTGG
3' ss Score
6.6
Exon sequences
Seq C1 exon
GGGGCCTGGGGCCGGCCAGTCCTCTACCAAGTGGTAGCTCAGTACGACTATCGTGCCCAAAGGCCGGAGGACTTGGACTTCCGCCAAGGGGACACAGTGGATGTTCTGTGTGAAG
Seq A exon
GTAGAAGGCTGCCCTTTCTCCACACTGCTGGCTTGCTCAGGCCTGGTGGGGGCTCTGCTCTCTAGGGCTCAGTCTTTTCTGTAGGCAGACACGGTACCCAACATGTCTCCACAG
Seq C2 exon
TGGACGAAGCATGGCTGGAGGGACACCGAGATGGCCGTGTTGGTATTTTCCCCAAGTGCTTTGTAGTCCCAGCTGCCACCTGTGTGGAAGCCCTGCCTGTACCTGAACCCCAGCCAGGAGAACAGCACTAGCAATAAATACCGTGACAAAACCAGCTTTAATTTAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009286:ENSRNOT00000012375:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.256
Domain overlap (PFAM):
C1:
PF0056419=PB1=PD(1.2=2.6),PF0001823=SH3_1=PU(58.7=69.2)
A:
NA
C2:
PF0001823=SH3_1=PD(39.1=40.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGTGGTAGCTCAGTACGAC
R:
AAAGCTGGTTTTGTCACGGTA
Band lengths:
248-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]