MmuINT1026063 @ mm10
Intron Retention
Gene
ENSMUSG00000009487 | Otog
Description
otogelin [Source:MGI Symbol;Acc:MGI:1202064]
Coordinates
chr7:46254111-46254518:+
Coord C1 exon
chr7:46254111-46254219
Coord A exon
chr7:46254220-46254471
Coord C2 exon
chr7:46254472-46254518
Length
252 bp
Sequences
Splice sites
5' ss Seq
CTGGTCTGT
5' ss Score
3.05
3' ss Seq
TTGTGATCTCTGTGTTTCAGTAC
3' ss Score
8.16
Exon sequences
Seq C1 exon
GGCTGATCTTTGAGGATGGAGGCTGCATGTCACCAGCTGAGTGTCCCTGTGAATTCCATGGAACCCTGCACCCGCCTGGCTCTGTGGTGACAGAAGACTGCAATGCCTG
Seq A exon
GTCTGTGTCCCCTGCCTGGAGGGAGGGGCCTGGGAAGGTCAGAGCTTCCTGTCAGGCTGCATGCCTGGGGTTGAGGAACCCTGGACAAGCAAGGGTTGCTCACTTACCTCTTTGAGCTCCAAGGGGATGTCATTAGATCTATGGGGGAGGGGGAGAGATTTCTACCATCCACTTTAGAAATTGGACTCTGCGGGCTGGGGCCTGGGACAGTGTCTGGGCATTGAGGCCACCTTTGTGATCTCTGTGTTTCAG
Seq C2 exon
TACGTGCACAGCAGGGAAGTGGGTGTGCAGCTCTTCCGTCTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009487:ENSMUST00000164538:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0182612=TIL=PD(25.5=37.8),PF0009313=VWC=PU(37.0=54.1)
A:
NA
C2:
PF0009313=VWC=FE(29.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGATCTTTGAGGATGGAGG
R:
CTGGACAGACGGAAGAGCTG
Band lengths:
156-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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