MmuINT0041077 @ mm9
Intron Retention
Gene
ENSMUSG00000026798 | Coq4
Description
coenzyme Q4 homolog (yeast) [Source:MGI Symbol;Acc:MGI:1098826]
Coordinates
chr2:29651456-29653263:+
Coord C1 exon
chr2:29651456-29651549
Coord A exon
chr2:29651550-29651927
Coord C2 exon
chr2:29651928-29653263
Length
378 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
TTCTCTCTGCTGCCCTCCAGGAG
3' ss Score
9.85
Exon sequences
Seq C1 exon
GAGAGGTTGTGGTAAAGTGGTTTGAGGCTGTGCAGACCGGCCTACCAATGTGCATCCTGGGAGCACTCTTCGGACCCATCCGCCTCCGTACTCA
Seq A exon
GTAAGTTTCCTGGGGTGAGAGGAGACCTCAGAAGGGCTGGGGCTCCAGGAAAGAAGGATGGCATCATACAGGTGCTTCATGCCTCTCTAAAAAACAAGGATGGGGAGAATGAGGCAGAAAGAGAAACTGAGTCAGTGAGCCCCAGGGTCTCTCCAGCCAGGCCTCAGGGACTGGATCAGCATGAATAGGGTCTCATGGAGCTGCAGCTTCTGGAATTGGACAGCCCTGTATTTAAATCTGAGCTTCGTTGTCCAGGGTGTGTGCTATGAGGAGTGGGAACTTCCCTCACTGAGATCTGCATAGGTCTGAGGGAGGGTTGACAGAAAACAGGGTCTGTTTGGGGACCTTATGGCTTTTCTTCTCTCTGCTGCCCTCCAG
Seq C2 exon
GAGCCTCCAAGTGCTGTTCTCGGAGCTGATCCCTTGGGCGATTCAGAACGGGCGCAGGGCCCCATGTGTCCTCAACATCTACTATGAGCAGCGTTGGGAGCAGCCCCTGACAGCCCTGCGGGAGGAGCTGGGCATCAGTCCTCCCCCAAAACATATCCAGGGCCTGGCCTAGCTTGAGCTGCCACACAGGGAGAATTAAGCCTTTCTCTCCACACACTGCCTTCCTCGGGACAAAAGAGCCTCTCAGCTGCTTTTGTTTCTTCTCTTTGAACCTTGAACTCAGAGTGTCACTTGCTGCCTTGTACCTTCAGGGCCAGCCCAGGAGAGAGAGGCAGAGCAATGGAGCCCCAGGCTGCTGTGAGCCATCCGGAGAGAGCAGTATGTATGCCTCGAACAGCCATATTGGATCATACTGATCATTGCAGTCTGAGGCTCCTCTTCTGGACAGTGACTCTGACAGGGCGTTTTGTCAAGCTGTCTTCGAAAGCTTGACTACTACATCATGTTACCAAGCCCTGAGCAGACTGGTGGGGAGGAGAAGGCGTCTCTGGTGTCTGAATAAAGCTCCCATCAGGCCTAGAGTCTGCTGGTTGTCCTAGACTTAGCTCCCTTTGCCTGAGGTATTGGTGAGGGGAATTCCGTCCCAGTTGGACTCCAGTTGATGTTGCTGTCATTGGGTCTTAAGGCAAGCAGTCTAGGAATCAAGTCCCCAACCATCAGAAAACTAACAAGTCCCTTGTATTTGTAAGCCAGACTTTTGACATCAGCTGAGGAACAGCAGCAATCCCTATGGGTCAGTGGTAAAGGCACCTCCATCAAGTCTGCAGACATGATTCCAATCCCAGCACCCACAGACTAGAAAGATAACGGTTTCTCACAAGTTGTCTGCACGTGTCCACACACATAAACACACAAAATGAAACTTCAGAGCTGGAACAAAACAAATAAAACAGGGCTTATTGGATGACTTACAAATGTGAAAGCACATGTCACCAAACCTGAAGACCTGACTTCCGTCCCCAAGACCCACAAAGTGGAAGGTGAAAAACAACATCTGCAAGTTGTCATGACCAGCACAAACATGCCATGGTGTGCATGCACTCACACCTGTGCAAAATAAAGTGTGAAAACTAAAGTGATGGTTTGGGGAGATGTCTCAGCAGCTAAGCACTGGAAAACAGGACCCGGTTTAATTCCCAGCACCCATGTGGTGATTCATAACTACCCTTAACTCCAGTTCTAGGACCTAATGCTGTCTTCTGATTTCAGGATCCCAGGCACTCTGGTGGTGCATATAAATACATGCCCACAAAATGTTCATCTACATAAATCTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026798-Coq4:NM_178693:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF050198=Coq4=FE(14.0=100)
A:
NA
C2:
PF050198=Coq4=PD(22.5=86.2)
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:
CCTACCAATGTGCATCCTGGG
R:
ACAAGGCAGCAAGTGACACTC
Band lengths:
357-735
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: