MmuINT0109929 @ mm10
Intron Retention
Gene
ENSMUSG00000036805 | Noxa1
Description
NADPH oxidase activator 1 [Source:MGI Symbol;Acc:MGI:2449980]
Coordinates
chr2:25086186-25086774:-
Coord C1 exon
chr2:25086620-25086774
Coord A exon
chr2:25086301-25086619
Coord C2 exon
chr2:25086186-25086300
Length
319 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CCTCAGGACTTCCTGTGCAGTTA
3' ss Score
3.33
Exon sequences
Seq C1 exon
GGAGCAGCTACAAAGGACCCTGAATCCTTGGTGACTGTCACTGTGCAGTGCCACTTTACTGTGCCCCTGAAGGTCCCAAGAGGAACTGGCCTGTCCAGTTTTCAGACACTACTAGCTCAAGCCCTCCTTCACCAGACGCAGACAGGGCAGCTCAG
Seq A exon
GTAAGTCAGAAAGCTGTGAGCATGGGGACTCTAAGCTACGGTACAAAAGGATGGATCTGAGCTACGAGGAAGTGAGGGCTCTTCTGAACTGAAGAGAAAGACTTCTGTTGTTGTTTTGCTCTGAAGTCGTCATTTTTCAGGCCCAGGACAGGATCAAAGCTAAGGCTCCCTTAGCTCTAGGCCTAAGAATCTAGGCAGCCACTGGAAGTAAAGGCCAGGCACAGTGGAGAGCCACAGAAGTTAGTTTCCTTTAGGGAAAGACCAGGTAGTAGGTACTCCCCCTACATACTGGAGCTCACCCTCAGGACTTCCTGTGCAG
Seq C2 exon
TTACAAAGCCCCAGGAGAGGAGAGATCCTGGATTCCCATCTCCACGGAGGAGTCCCTGCAGAGTATATGGAGGAATGTGCCCGTGGGCCCAGGAGGGTTGCAGCTCCAGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036805:ENSMUST00000044018:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.026
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:
GGAGCAGCTACAAAGGACCCT
R:
CTGGCACTGGAGCTGCAAC
Band lengths:
270-589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types