MmuINT0114026 @ mm9
Intron Retention
Gene
ENSMUSG00000009487 | Otog
Description
otogelin [Source:MGI Symbol;Acc:MGI:1202064]
Coordinates
chr7:53560597-53560958:+
Coord C1 exon
chr7:53560597-53560672
Coord A exon
chr7:53560673-53560779
Coord C2 exon
chr7:53560780-53560958
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-Otog:NM_013624:50
Average complexity
IR-S
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: