MmuINT1026074 @ mm10
Intron Retention
Gene
ENSMUSG00000009487 | Otog
Description
otogelin [Source:MGI Symbol;Acc:MGI:1202064]
Coordinates
chr7:46267243-46269365:+
Coord C1 exon
chr7:46267243-46267396
Coord A exon
chr7:46267397-46269257
Coord C2 exon
chr7:46269258-46269365
Length
1861 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGT
5' ss Score
7.48
3' ss Seq
GGCTTACTGTGTCCCTCCAGCCT
3' ss Score
8.03
Exon sequences
Seq C1 exon
CTGCTGCCTGTCCAGCAGGCCAGGTGTTCGTGAACTGCAGTGAGCTGCACCCAGACCCTGAGCTCAGCAGGGAGAGGACGTGTGAGCAGCAGCTGCTGAACCTGAGCGTGCCAGCACGTGGCCCCTGCCTGTCGGGCTGTGCCTGTCCCCAGGG
Seq A exon
GTATGTATCTACATGACTAGAAACTCGCCTGCCTGAATCCACGGTAGCAGATCTGGGCACGTCAGGTTGGAGATGAGGATGTCCTCACACAGCCGAGGATGGAGGAGACAGTGTGGCTGTGATGTCTGTGGGGAGCCCGGGAGGAACAGGAGCGTGAGAGCTCAGCCTGGAATGGAGCCTGTCAGGTTCTGCGTCCTGCGAGCCATGGGACCTCGGATGAGGAAGGCGCCTGTTCCTCTGATACTCAGTGTTTCAGCTGTAAAAGGAGCACCTAACACTTACCACCATAACAGGTGGATTAAACAAGGCTTCAAAGCGGAAGCATGGAGACAGGTGTCTGATGTACCCCAAATGCCCAAGGGACCCCATAATCAAAGAGCAGGCACCAGAAGACCCAGGCTAGCTCTTAGCCTCCTTCCATGATCACAGCCCTCCATGTGGCGCCCCTGGAATAATCCAAAAAGAAGACCACACCCACAAGAGCAGCCTCCCTCCTGGGTGTCCAGATGCTGCACAGAGGCTGCAGGCTGCAGGGAGCTACAGGAGCTGGGCTTGTGGCTATGCTGTGTACACAAGGGCCAGTGCTTAGCTCTGCCAGTGACTTTCTCAGGTCTGGGCCAAAGGAGGCCCCCGGAGCCACCTTCGCCCCATGACCTGGCAACGTGGGGTTATGCCGTTCAGTCTGTGCTGAGATTAGTGGTCATTTGGGAGCCCTGGCTTGGGTCTGGCAATGAAAGGGCATGACATGAGGGTCAGAGCTCTTGCAGTGGGTGGGGCAGGACACAGCCTGCTGGAGCTTTACAATGTTTAAGACACCGATGTTCCCTCTGTCAGCCTCAAAGCAGGGAGGAGCTTACTCATTTCACAGAAGACAAAACAGGCCAGGGCCAGAGGGAGGGGAGTAGTCTGCTGAAGGAACCCGGCTCAGACCAAAACTCCTTTATTGCAAGCTCTGCTCCTTGCCTAGAGTGGCAGGGAACACAGTGTGGAGTATGTGCCTGCTCCTTCCCCAGCCAGGGCACTTACCTGCATAGGATCCTTGCTTTACCTACAACCACCCAGACCTCAGACCTTGGAGTGTGTCACTGAAGACCTCTTGAAATACTGTCGTGTTTGCACAAGCCTGCCTCTCGGCCTGAGGTATCTGCAGTCAGGAGCCAGGGTCTTTCACTGTCCAGATTGTGACCATACAGAGATTCTGGCCTGGCCTGGCTCCTTGGTCTGGATTTGGGTCTGCTCAGGCTGCTTGAAGGGTATATATAGAACACTTCGTGGGGAACCCACCTGTACTCCCATGGGGCTCATGAAAGGGGGATTGTGACAGGGAGGCAGTTCTACAATCCTGAAAAGTCCTCTTGATGGGAAAAGGCTCCCAAAGATGCTCCAATACCATCAACAACTCCTCTCCAGGACCCACTGAGCCCACAGTTAGCTACTTCTGCACCCTGGTCAACATGTCTCTAAGTTTATCTAAGAATGCACAATGCTGGGCATTGCTCTGAAGGACCCTGGGCTATTATAGGGATGTCAGTAGCTATTCCAGTTTGCTTTCTGTTGCTGTGATAAATCACCCTGACCAAAAGCAACTTGAGAGAGGAAGGGGTTTATCTGGACTGTACTTTCAGGTCAGCGTCCATCACTGAGGGAAGTCAGGACAGGAACTCAAGTGGTCGCTGAAGCAGAGTCATGGAGGAATGCTGCTAACTGGATTTCTCTGTAGCTCATGGAGAGCTAGCATTCTTATATAGCCCAGGCCTACCTGCCTAGGGGTGGTGCCACCCGTGGTGGACTGGGCCTTACTTCATTGTGACAAATCTAGAAGGAATGCTCTTTTGACCACTGGCTTACTGTGTCCCTCCAG
Seq C2 exon
CCTGCTCAGACATGGGGACGCATGCTTCCCACCAGAGGAATGTCCATGTACCTGGAAGGGGAAGGAATATTTCCCTGGGGACCAGGTAGTCTCTTCCTGCCACACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009487:ENSMUST00000164538:23
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=PU(76.2=92.3)
A:
NA
C2:
PF0182612=TIL=PD(22.2=37.8)
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:
CTGTCCAGCAGGCCAGGT
R:
CAGGTGTGGCAGGAAGAGACT
Band lengths:
255-2116
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