MmuINT0114161 @ mm9
Intron Retention
Gene
ENSMUSG00000048236 | Ovch2
Description
ovochymase 2 [Source:MGI Symbol;Acc:MGI:3045251]
Coordinates
chr7:114932116-114932744:-
Coord C1 exon
chr7:114932604-114932744
Coord A exon
chr7:114932247-114932603
Coord C2 exon
chr7:114932116-114932246
Length
357 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAA
5' ss Score
4.78
3' ss Seq
TCTGCCCTCCTTTGTTTTAGATT
3' ss Score
12.06
Exon sequences
Seq C1 exon
GGAAATTCTGTGGAGAAAATCTCCCTTCATCCATTCTCATTGGCTCCAGTTCCATCCGGCTGAGGTTCATCTCTGATGCCACAGATTATGCCACTGGGTTTAATCTCACCTATAAAGCACTTAAGCCGAGATACCATCCTG
Seq A exon
GTAAAAAACCATTTACTTTCATTGTTTAATGTCTAGGCCCTTTGCCGAAGCTTTGGCATCATAGGTGTTGGAGGTGGTAAGCAGGGAGACCCCCACCTGAGGTCTGCTGGCTTCATAGTATAGAAGGAATCTTGGCAAGCTGAAAGATGTAGTCTCTCCTCCACAGTCCCTGAAAGTTCCTGATCACTGGCCCAAGGAGCTGAGAGGGCCTTAAGAGTTCTGTAAGCCAGAGCATAAGACTCTCTCTTGTTGTTGGCCCTGCCAAAAGATGTAACTTATCACTTAGTAGAGACAGGAGGGAGAACACAAAAAGTCTTTCCTGTGTGTGTGAGTTTGTTCTGCCCTCCTTTGTTTTAG
Seq C2 exon
ATTCCGGCTGCAGGTCTCTAACTATCCTCTTTGAAGAAGGCACTATACAGAGTCTTCACTATCCTGAAGACTACAGTAACATGGCTAGCTGTACCTGGATTTTTCAAGCCCCCAACTATTGCCTAATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048236-Ovch2:NM_172908:11
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:
PF0043115=CUB=PD(34.3=77.1)
A:
NA
C2:
PF0043115=CUB=PU(36.4=90.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GAGAAAATCTCCCTTCATCCATTCT
R:
TAGGCAATAGTTGGGGGCTTG
Band lengths:
254-611
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: