MmuINT0114026 @ mm10
Intron Retention
Gene
ENSMUSG00000009487 | Otog
Description
otogelin [Source:MGI Symbol;Acc:MGI:1202064]
Coordinates
chr7:46305227-46305588:+
Coord C1 exon
chr7:46305227-46305302
Coord A exon
chr7:46305303-46305409
Coord C2 exon
chr7:46305410-46305588
Length
107 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CTCCCCTGTCCCCCATCCAGTGA
3' ss Score
8.31
Exon sequences
Seq C1 exon
TGGGAAAAGTCGCAGCTGGATGAGGAGTTTATGCACAGCGTGGAGAATGTGTGCGGCTGCGCCAAGTACGAGTGCG
Seq A exon
GTGAGTGAGCAAAGGGCAGATATGGGAACCTCAGGTGGGCTAGCTGGGAAGGGCCACGGTGGATGGCTGGGCTCTCCAGGACAGGTCCTCCCCTGTCCCCCATCCAG
Seq C2 exon
TGAAAGCCCCTGTATGCCTGAGCCGTGAGCTGGGTGTGATGCAGCCAGGCCAGACTGTGGTAGAGCTCTCAGCGGATGGTGTGTGTCATACGTCCCGATGCACAGACGTGCTGGACCCTCTCACCAACTTCTACCAGATCAACATCACCTCTGTCCTCTGTGACATGCACTGCGAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009487:ENSMUST00000164538:50
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAAAGTCGCAGCTGGATGA
R:
GCATGTCACAGAGGACAGAGG
Band lengths:
242-349
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