MmuINT0114010 @ mm9
Intron Retention
Gene
ENSMUSG00000009487 | Otog
Description
otogelin [Source:MGI Symbol;Acc:MGI:1202064]
Coordinates
chr7:53542590-53545203:+
Coord C1 exon
chr7:53542590-53544355
Coord A exon
chr7:53544356-53545034
Coord C2 exon
chr7:53545035-53545203
Length
679 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CGCTCCACTTTGTGCCACAGCCC
3' ss Score
6.96
Exon sequences
Seq C1 exon
GTGTGGAGCCAGCCCCGCGGGGTCCCACGGAGACCCTTGGCAATGAGACTCTGGTACCTGGTCAAGTGCCACCCACCACCAGTGCCGAGCAGCAGCTTCCACAGGGGCTCCCTGGAGCCTCTGCCTACAGCCCCGCCCCTGTTCCAGTAGCCCCACCCACCTCAGCCCCAAACCCACCAATGGCTGCCACGGAGGGGCAAGCGCCATCTCCAGGATCCACCCAACCCACACTGCAGACACCCCTGGGCCTTACAACATCTAACTTTCCTGCTGGCCACACAGAGGCCACAGCCAGAGAGGAAGGGGCTGCCAGCCTTCTAACCACTTCTCATCCCCCAGGGTTCTCGTCCTCCCTCCCTAGTTCCCTGCAGATGCCCACATCTGGCATTGTATCAGGTGCAACAGAGACAACCAAAGTGACCATAACCTTTACAGGGAGTCCCAACACCACTGTCGCTTCCCGGTCACCCCCTATACCTCGCTTCCCACTCATGACCAAAGCTGTGACAGTCCCAAGTCATGACTCCTTTCCTGTTAAAACCACACCTCTGCAGCCCTCTTGGCTATGGAGCCTCTCTTCCAGACCTATGACTTCCCTTGGAGCTACGTCCTGGCCCCCCACCTCCCCGGGATCCCACCTGTCAACTGCAGTAACTAAGGTGGCAAATAAGACAATGACATCCCTGTCTGTCCTGGCCCAGAGCACTTCAAGTTCCAGCCAGCCCCTGGCTGCAGTGACCACAGCACACAGGGCTCCTGCCAGTCCCCTTGTCACCAAGGGCTTGGAGGTGGTGTCAGCCACAGAGAAGGGAGAAGCTGGGCACAGCCAGCTTACAGAGTTGCCAGTGTCCCCACCCCCAAGCCCAGCCCCCATCGACCTGCCTCACCCAGCCCAACATACCACCACAGCCCCTGGGCCTTCTGCTCTGTCCCCGGGGATCCTGGCTGCTGGCAGTCCATCCACAGGTGCTCACAGACCGGGGGCCACAGCTTTAGCTTCTCTAGAGCCAACTCGGCCACCCCACCTTCTCTCTGGCCTACCTCTGGACACCAGCCTGCCCTTGGCTAAGGTGGGAACCTCTGCCCCAGTGGCCACACCTGGCTCCAAAGGCTATATCCCCACCCCTCCACCTCAGCACCAGGCTACAACTTTGGCTACGGCCATGACTGTGAGCCCACTTACTCAGTCACTCAGTCTGACAGTGCCACTCATGTCTGCTGTAGAGGAACAGGCACACTCACCTAGCCCCAAGCCTCCCCAAGGAACAGGTATGGCTCCAGACCAGATGCTGGGAGCCACATTGCCAAGCTTTGGAGCCTCCTCTGTGATTGCTGGGGTGCCCCCCACAGTGTCTGCGGCCCCACGGAAGAGCACCACCCAGAGAGCAGCCATTCTATCTAAGAAGGTGTCTCCACCCACCCTCATCTCTGACTCTGTCCAGGGTGGGTTCACAGAACTCACACCTATAGTGAGCCATACTGTTACCCCCTTGGCGACTGAGGCTGAAGGCCCCCGGGCTGGCACAGTGCCACTGGTGCCCACAACCTACTCCCTAAGCCGGGTGTCAGCCAGGACGGCCTCCCGGGAAGGCCCGCTAGTTCTGTTGCCTCAGCTGGCAGAGGCCTATGGGACCCCAGCAGGACTCCAGCCCCAAGAAGATCTAGTGCGCCAGGCCACTACGGAGCAGTCAGGGCGCTCAGCTCCAGCCAAGAGTATAGCAGAGGAGTCGATGGAGGCCGAAGTGAATACTTCTGCCACCTGTGTG
Seq A exon
GTGAGTGACTTGTTAGGTCCTTCGATTTTGTGGATTGTCCCCAAGACGTGGCCTTCTCTCTGCCTTTAGCATGGCCATTACCATAAGCTGTGTCTGTTGAGGTTCCTGTCCGTCTTTATTTACTCTATGCTACAAGATGGCAGTAGTGTCCTTGACCTTGCTCACCCTTATCTGAAGTTCCTGGTACTTTAAAAATCACCAGGTCCCCCGAAACCACAGCAGGGTGCCACTTGCCTTTTTGGGTCCAGGACTGATTGAATGCTTGGTGTGTTTCTGCGGGGTGGGATGGGAGCGAGCTTTGGACCGTGAGAATGAATGAACACATGCATGCTTACTGCTCAGCTAGCTTCCCCTGCACTCACACAGTCCGGGGCTCAAACCCAAGGAATGGTGTTGCCCATGTTCAAGCTGGGTCTTCCCGCATCAATTAAAACAACCCACCACAGGTATGCCCACAGTCCAACGTGATCCAGACAATCCCTCATTGAGACTCTCTTCCCAGGGATTCTTGGTTGACTCAGGTTGACTATTGAAACTAGCCATCACAAGGCGTCGGTTCCCTGGTTCTACTTCAATATAACCTGCCATGCTAGACTCTGGCTTGTTCCAGAAGGGTCGAGGTAGGTAACACCGTAAGCTCTGAGGGTCACTCATGTTAACGCTCCACTTTGTGCCACAG
Seq C2 exon
CCCATCGCTGAACAAGACTGTGTCCGTCACATATGCCTAGAAGGCCAGCTGATACGTGTGAACCAGACCCAGCACTGTCCTCAGGGTGCCGTACGCCCTCGCTGTGGGGTCCTGGGCCTCGCTGTGCGGGTGGGCGGGGATCGCTGCTGCCCACAATGGGAATGTGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009487-Otog:NM_013624:36
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.830 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0182612=TIL=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATACTGTTACCCCCTTGGCGA
R:
CACACGTATCAGCTGGCCTTC
Band lengths:
350-1029
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: