MmuINT0041073 @ mm10
Intron Retention
Gene
ENSMUSG00000026798 | Coq4
Description
coenzyme Q4 [Source:MGI Symbol;Acc:MGI:1098826]
Coordinates
chr2:29788437-29789999:+
Coord C1 exon
chr2:29788437-29788568
Coord A exon
chr2:29788569-29789902
Coord C2 exon
chr2:29789903-29789999
Length
1334 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
TCCCATCTCTGTCCTTTCAGACA
3' ss Score
10.87
Exon sequences
Seq C1 exon
ATGTACCCCTCAGGGCCGGGAGCCATGGCGCCCGCCTGCTGTACCCGGACCACATCCCAACCACCCCGCTGCAAAAGATGCTGCTGGCTGCGGGCGCGGCGGGAATGGCTCTCTACAACCCCTATCGCCACG
Seq A exon
GTAAGACGGTTTACTCTTCGGTCTCGAAAGCTGGGACCGGTGAAGACTTGGTTTGTGGGCATCCAAACCTGGCTGCGCCTATCATATTTCCCAGGATCGTTTATGATAATCAGGTGCCTGATTCTAGCTAGAACTGTTTTGGGTCTTCTGGGCACAGGGAGGAGAGGAAGAAAGAAACGTGAAGTCTACAAGTCTGCCTTTTTGTAATTCTTGGAAGAGTGTCACCCTAGCATATTAATCTCTGGGCTGAATGACCAGGTACACACCAAATTACAGCATTCTCACTGGGTAGTAAGTAAACTTGGTAAGGGCCATGATCTTCAGGATTTTCTTTGCTGAAACAGTTCAAGATCAGCTTCTTTTTGTTTGTTTGGCTTTGGTTTTTTCAAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCATTCTGTAAACCAGGCTGACCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCATGCGCCACCACTGCCTGGCAAGATCAGCTTCTTTTTCCATACATACCCAGTCTTTGCTCAAAGAAAGAAAAGATGGGAGGAAGTAAAAGAAGAGACATGTGGCATGGTTTATATAGGATCTGGTGACTGTACCTGCACTCAACTCTAGCGCCATTTTTTAAAAATTGTTTTGTTGAGGCAAGGTCTCTTATAGACTGGGCTGTCCCCTAACTCCATAGATAGCCAAGGATGACTTTGAATTCCTGATCACCCTGCCTCCCTACCTCCTGAATGCTGGGACTACAGGTGTGTGCTACCCTCATACCCAGTTTATATGATGCTGGGAACCAAACTCAGGGCTTTGGGTGTGCTAAGCAAGCACTGTGTCAGCCTAGTTACTGCCATTCATCACCATTTAATCTCAAGGCCGGTGGAAACAAGACACTCTGTCTTGATAATGGTCTATGAAAGTGGTTCCTGCTGTTGATGAAAGCCTCCATATTCCTATAGGTTTGTAATGTTAAGGATAGTAGCTAGCCGGGTGTGGTGGCATACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGTGGATTTCTGAGATCGAGGACAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCTAACTGTCCTAGTGGTACACGCCTTTAATATAGCACTTGGAAAGCAGAGGCAGAAAGATCTCTGAGTTTGAGGCCAGCCTGGTCTGCATAATGAGTTCCAGGCCAGCCTGTACTACAAAAAGAAACTGTCTCAAAAACAAACAAACAAAAGAATCCATTCTCTGTCTTTTCCCATCTCTGTCCTTTCAG
Seq C2 exon
ACATGGTTGCAGTTCTAGGGGAGACCACAGGATGCCACACCCTGAAATTCCTCAGGGACCAGATGAAGAAGGATCCAGAGGGTGCCCAGATTCTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026798:ENSMUST00000028137:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.078 A=NA C2=0.273
Domain overlap (PFAM):
C1:
PF050198=Coq4=PU(13.5=66.7)
A:
NA
C2:
PF050198=Coq4=FE(14.4=100)
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:
CTGCTGTACCCGGACCACATC
R:
GGCACCCTCTGGATCCTTCTT
Band lengths:
183-1517
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