MmuINT0109928 @ mm10
Intron Retention
Gene
ENSMUSG00000036805 | Noxa1
Description
NADPH oxidase activator 1 [Source:MGI Symbol;Acc:MGI:2449980]
Coordinates
chr2:25086620-25087027:-
Coord C1 exon
chr2:25086939-25087027
Coord A exon
chr2:25086775-25086938
Coord C2 exon
chr2:25086620-25086774
Length
164 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
AGCCCTGTTTTTGTCCTCAGGGA
3' ss Score
10.69
Exon sequences
Seq C1 exon
GTGGTCACACGAGCCCTGGCCTATATGATAGTTTGCTGGCATCCAGAAGGCCTGGTCCAGGCCCCTCTGAAGTTTCCTCAGGATCTGAG
Seq A exon
GTAAGAGCTATCCTGCTCTCCAGTCCCCTCTCATCAGCCACTTGGAGCAAGGAAGGTCATATCTCAGATTCTCTTTGACCTTTCAGCCCAGCCTCTATTCTGATTCCTTGGCTCCAAGAATAAACCTTCCTTCAAAGGCTAAGCAGCCCTGTTTTTGTCCTCAG
Seq C2 exon
GGAGCAGCTACAAAGGACCCTGAATCCTTGGTGACTGTCACTGTGCAGTGCCACTTTACTGTGCCCCTGAAGGTCCCAAGAGGAACTGGCCTGTCCAGTTTTCAGACACTACTAGCTCAAGCCCTCCTTCACCAGACGCAGACAGGGCAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036805:ENSMUST00000044018:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.883 A=NA C2=0.212
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0056419=PB1=PU(49.4=76.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCACACGAGCCCTGG
R:
CTGAGCTGCCCTGTCTGC
Band lengths:
243-407
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