MmuINT0113047 @ mm10
Intron Retention
Gene
ENSMUSG00000009654 | Oit3
Description
oncoprotein induced transcript 3 [Source:MGI Symbol;Acc:MGI:1201782]
Coordinates
chr10:59427944-59429651:-
Coord C1 exon
chr10:59429491-59429651
Coord A exon
chr10:59428360-59429490
Coord C2 exon
chr10:59427944-59428359
Length
1131 bp
Sequences
Splice sites
5' ss Seq
GACGTAGGT
5' ss Score
6.78
3' ss Seq
ATCACCCCTGACTGGCACAGGTG
3' ss Score
5.75
Exon sequences
Seq C1 exon
TCCCCGTGTTGTGCAAGTCCAGCGCCATTGAAGTGAGTGTCCCCCGGGAGCTGGTTGGAGGCCTGGAGCTCTTCCTGACCAACACCTCCTGCCGAGGAGTGTCCAATGGCACCCACGTCAACATCGTCTTCTCACTCAAGACCTGCGGCACCGTGGTTGAC
Seq A exon
GTAGGTTCCCTGGAAGACACTTAGGGAGTGACCAAAGCTACTTAGGGAGGTATCGGACAGAGGGTGTATGGGGAGATAGGTCTACACAAGATAACTTCTTCTGCCCTGAGCCATGGTCCTGGAACGGTGGGGTGTAGGATGACTAATTCTTCCACCGCCATTCATACACAGCCCTGAGACACCTGGATGCAAGGTATTTTCCCACATCAATCCCAGCAGTACCAAGAGGCAGGATTGACGACAGCCTGTAGTCAATTAGTTGGAGGCTAAGGATGAAGTGGGCTAAGGAGTTCGTGGATCGTTTAGGATAGGTGAATGAGTCCAGACATTGATCCAGGCTGAGGTAAACGGCTTATGTTTTTCTTATCTAAACATGCTCACACCCCCATTCTGAAGCCCCAGAGGGGAATATGGAAAAAGTTCCTGCCTGTTAGGACGCACACACAGTCCTGAGATGATATAAAATGTAAATAAGAGCTGGGCTGTCTGACACACAACAGACACGGACTCTAGGAGTCCAGGAAAGGGCTGTGGCTTGAATGTGGGTAGAACTGTGTGTGATACACACAAGCCAAGAGGCAACGGATCTTTTTGATGGGCAGAGCAGCCTGCCCTGCTTCCAAAGGCCTGACTTGTGTGCTAGGGAGGGACAGCAGGTTTGAGTCCACAAAAACTGGATGAAGCTAGTTTTTCTGACCACACAGTGTGCAAGATGGATGATATACAGAGGACTGGATACAGGTCAGCGCAGAGGCCTTGGAGATCATTTGTTTATGAGTGCTGATAAAAGAATCCTAGGGCTAATTACTTTGGGTGAGATACAAGGTATCTATGGAGGAATAGGGGTTCCTCATTTAGGCAAGCGGTATGTATTGTTTCTATGGATAAGCTGATGGAATAGCCCCATAACTGACTGGTACCACTTCCTGTTGGCAGAGCAGAAACAGTTCTGGGGTATATAGCTGAAACGCCTCTGTACTGGTGTGGGTGCAGGTTCGGGATGAATCCGCGGCTATCAGGATCTGCGTGTGGCACTGCCTCTTGTAAGGGCCAGAGCTTGGGATTCACTGATTGAGGAGAGAGGTAACTAGAAACAATCTCACAATCTCTCATCACCCCTGACTGGCACAG
Seq C2 exon
GTGGTGAATGACAAAATCGTGGCCAGCAACATCGTGACGGGCCTGCCCAAGGAGACCCCTGGGAGCAGTGGGGACATCATCATTCGGACCAGCAAACTGTTGATCCCCGTGACCTGCGAGTTCCCACGACTGTACACCATCTCGGAAGGATACGTGCCCAACCTGCGCAATGCCCCATTGGAAATCAGGAGCCGAAACCACGGCATCTTTCCCTTCACACTGGAGATTTTCAAGGACCACGAATTCGAGGAACCGTACCGGGAGACTCTGCCCACACTCAAGCTTCGCGACTCACTCTACTTTGGCATAGAGCCCCTGGTGCATGTGAACGGCCTGGAGAGCCTGGTAGAGAGCTGCTTTGCCACGCCCACTGCAAAGATGGATGAAATCCTCAAGTACTACCTGATCCAGGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009654:ENSMUST00000009798:6
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:
PF0010018=Zona_pellucida=PU(20.0=92.6)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(55.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTGAAGTGAGTGTCCCCCG
R:
AGGGAAAGATGCCGTGGTTTC
Band lengths:
350-1481
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