MmuINT0041076 @ mm10
Intron Retention
Gene
ENSMUSG00000026798 | Coq4
Description
coenzyme Q4 [Source:MGI Symbol;Acc:MGI:1098826]
Coordinates
chr2:29795381-29796029:+
Coord C1 exon
chr2:29795381-29795510
Coord A exon
chr2:29795511-29795935
Coord C2 exon
chr2:29795936-29796029
Length
425 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CTATCCTTCCTTATCGCTAGGAG
3' ss Score
8.58
Exon sequences
Seq C1 exon
AAGGTCTCTCCAGACACACGAGCACCTACACGCTTTGTGGACGATGAAGAGCTAGCCTATGTGATCCAGAGGTACCGTGAAGTGCACGACATGCTCCACACCCTGCTGGGCATGCCCACCAACATGCTCG
Seq A exon
GTGAGTGCCGGCGGCCGGACAGGAGCCGGCAGGGCACCCCCAACCCCACCCCACCCCCAGGTCTGTCTGAGAAGGCAGAATCCCAGTTCGTGCTTCTCTTTATCAGCTAGCTCCATCCTGCCTTCTGCATGGTATGTATGCCCTAGCAGCATCCCTGCCAGCCACCCTCATCCTTCCCTGCCGCCCGGCCCTTGTCTCAGCATCTAGTCACCAAGCATCCCTGCTTCTGAAACCCATAGCACCTCCCTGAGGCCTGTACAGACCATTGTCAGCCTGGCCTTCGAGAGGTTCAGCATGTTGTCCCTGCATGTTATCCCAGGATGAGAGAGACTGGACCCCACCAAACCTTACAGTGCTTCTCGGGGGCCATTTCAACATCACTGGTCCCCCTCACCTGCCCACCTCCTATCCTTCCTTATCGCTAG
Seq C2 exon
GAGAGGTTGTGGTAAAGTGGTTTGAGGCTGTGCAGACCGGCCTACCAATGTGCATCCTGGGAGCACTCTTCGGACCCATCCGCCTCCGTACTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026798:ENSMUST00000028137:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF050198=Coq4=FE(19.4=100)
A:
NA
C2:
PF050198=Coq4=PD(13.0=91.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGACACACGAGCACCTACAC
R:
TGAGTACGGAGGCGGATGG
Band lengths:
214-639
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