MmuINT0041073 @ mm9
Intron Retention
Gene
ENSMUSG00000026798 | Coq4
Description
coenzyme Q4 homolog (yeast) [Source:MGI Symbol;Acc:MGI:1098826]
Coordinates
chr2:29643957-29645519:+
Coord C1 exon
chr2:29643957-29644088
Coord A exon
chr2:29644089-29645422
Coord C2 exon
chr2:29645423-29645519
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-Coq4:NM_178693:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.242
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: