MmuINT0114027 @ mm10
Intron Retention
Gene
ENSMUSG00000009487 | Otog
Description
otogelin [Source:MGI Symbol;Acc:MGI:1202064]
Coordinates
chr7:46305410-46305921:+
Coord C1 exon
chr7:46305410-46305588
Coord A exon
chr7:46305589-46305816
Coord C2 exon
chr7:46305817-46305921
Length
228 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGG
5' ss Score
6.22
3' ss Seq
TTCTCTGCCCTGGCCTTCAGAAC
3' ss Score
9.01
Exon sequences
Seq C1 exon
TGAAAGCCCCTGTATGCCTGAGCCGTGAGCTGGGTGTGATGCAGCCAGGCCAGACTGTGGTAGAGCTCTCAGCGGATGGTGTGTGTCATACGTCCCGATGCACAGACGTGCTGGACCCTCTCACCAACTTCTACCAGATCAACATCACCTCTGTCCTCTGTGACATGCACTGCGAGGCG
Seq A exon
GTAGGGACAGTGTGGAGTGTGTGTCGTCGGGAGGGCCGGGCTGGCAGAGTCTTAACAGGTTGCTGCCTGCTCCAGAAATGGAATCTCTAGCAGGCATCAGAGGCCTCCCAGTTAGGGGAGGCTGGGGCAGGGCAGCAGAGGGGCTTAGTTAAAGCCTGGCTTTGGAAGATACCTGGAGGATGGATGTGGGCATAAGGCTGATATCACCTTCTCTGCCCTGGCCTTCAG
Seq C2 exon
AACCAGGAGTATGACCACCCACGGGACCTGGCGGCCTGCTGCGGCTCCTGCAGAAACGTGTCCTGCCTCTTCACCTTCCCCAATGGCACCACTTCCCTGTTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009487:ENSMUST00000164538:51
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAGCCCCTGTATGCCTGA
R:
CAAGAACAGGGAAGTGGTGCC
Band lengths:
284-512
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