MmuINT0041072 @ mm10
Intron Retention
Gene
ENSMUSG00000026798 | Coq4
Description
coenzyme Q4 [Source:MGI Symbol;Acc:MGI:1098826]
Coordinates
chr2:29788259-29788568:+
Coord C1 exon
chr2:29788259-29788357
Coord A exon
chr2:29788358-29788436
Coord C2 exon
chr2:29788437-29788568
Length
79 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGC
5' ss Score
7.96
3' ss Seq
TACCTCTTTTCTGCTCGCAGATG
3' ss Score
10.84
Exon sequences
Seq C1 exon
GCCTAACCACGCGGACGTCCGCTGCCATGGCGACCCTGCTGCTGCTTCGCTCCCTGCGCCTCCACCGCAGTCTTCGGCCCCGTACGCGGCCAGCTGTAG
Seq A exon
GTGAGCAGCTCTGATTCCAGTGTCCGCGGCGACCAGAGGGACCGGACTCCTCTCACCTTTACCTCTTTTCTGCTCGCAG
Seq C2 exon
ATGTACCCCTCAGGGCCGGGAGCCATGGCGCCCGCCTGCTGTACCCGGACCACATCCCAACCACCCCGCTGCAAAAGATGCTGCTGGCTGCGGGCGCGGCGGGAATGGCTCTCTACAACCCCTATCGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026798:ENSMUST00000028137:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.078
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF050198=Coq4=PU(13.5=66.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTGCTTCGCTCCCTG
R:
GTTGTAGAGAGCCATTCCCGC
Band lengths:
180-259
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