MmuINT0114016 @ mm9
Intron Retention
Gene
ENSMUSG00000009487 | Otog
Description
otogelin [Source:MGI Symbol;Acc:MGI:1202064]
Coordinates
chr7:53553501-53554012:+
Coord C1 exon
chr7:53553501-53553721
Coord A exon
chr7:53553722-53553873
Coord C2 exon
chr7:53553874-53554012
Length
152 bp
Sequences
Splice sites
5' ss Seq
TTTGTAGGT
5' ss Score
1.17
3' ss Seq
TGACTGATGCATCCACCTAGGTC
3' ss Score
6.83
Exon sequences
Seq C1 exon
GTATCTGTGATGGAGATGCAGCCAATGACCTCACCTTGAAGGATGGCTCTGTGCTGGGTGAGGCAGAGGACCCTGCTCCCTTTCTGGACAGCTGGCAGGTGCCCAGCTCCCTGACTTCAGAGGGTCAGACCCGCTTCCGCCCAGACAGTTGTGCCACAGCTGACTGCTCGCCCTGCCTTCGCATGGTGTCCAACCGAACCTTCAGTGCCTGCCACAGCTTT
Seq A exon
GTAGGTATCCATGGAGTACAGCATGGGGCGACTTCCTGGGCTGGGGAGGGCACATGGAGAGACACTGTGACCTTCTGAGCAGGGTTAGGCTGAGCTGGGCCCTGGGATTTGGGGCACCAGGATGGGCAGCACTGACTGATGCATCCACCTAG
Seq C2 exon
GTCTCCCCAGAGTCATTCTGTGAGCTGTGGATCCGGGACACCAAGTACGTGCAGCAGCCCTGTGTGGCACTCACCGTGTATGTGGCTATGTGTCACAAATTCCACGTGTGCATCGAGTGGCGGGGCTCCGACTATTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009487-Otog:NM_013624:41
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:
PF0009420=VWD=PD(10.3=21.6),PF087426=C8=PU(31.4=29.7)
A:
NA
C2:
PF087426=C8=FE(65.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGATGCAGCCAATGACCTC
R:
TACTTGGTGTCCCGGATCCAC
Band lengths:
257-409
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: