HsaINT0040189 @ hg19
Intron Retention
Gene
ENSG00000167113 | COQ4
Description
coenzyme Q4 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:19693]
Coordinates
chr9:131085295-131087518:+
Coord C1 exon
chr9:131085295-131085426
Coord A exon
chr9:131085427-131087421
Coord C2 exon
chr9:131087422-131087518
Length
1995 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
GCCCGTTTCTGTCCTTTCAGACA
3' ss Score
9.85
Exon sequences
Seq C1 exon
AAATGCCCCTCCGGGCTAGGAGCGACGGCGCCGGCCCGCTATACTCGCACCACCTCCCCACCTCCCCGCTGCAGAAAGGGCTGTTGGCCGCCGGCTCCGCGGCGATGGCGCTCTATAACCCCTACCGCCACG
Seq A exon
GTAAGGCCGCCCGCGCCTCGCCCCCGTGGGGGCGGCTTGGAGCCGTTTCCTGTGGGTAACTGGAACATAGCCTAGGTCGGGGTACCCAAACCTGGTTGCAGCTCGTAACCACTCGGAACGTTTATGAAAATGCAGATTCCTGGATCCCACCTAAACGCACTGAATCTGAATCTGAATCTGCAGTGGAGGGAGAAATGGGCGTGAAACCGAAAGTCTGTCTTTAAACTACTTGGGAGAATCTGTCATGCAGCCATATTGAGAACATCTAGACTAAATAGATGATTCATAAGTACCGATCAGTTTATAATATCCTACTAGAAAGTCAACTCCGAGGTCGAGGACCATGTCTGCCTCGTTCCACTGCATCTGCAGCCTTCTGGATAGTGCCTGGCACATAGTAAATGCTCAATAAATGTTTGCTGGATGTGTGACTAGAACATTCTAGGGTTCTACAGTGTTTTTCTTATGCCTCCTAGATTTTTGAGTTCTGGGAAGTACTGTTATTCCTACTAACAAAAACAGGCTAGGCGCTATTATAGTGGCTCACGCCTATAATCCCTATCGGGGGGCCGAAGCGGGCAGATGGCTTGAGCTGAGGAGTTTGAAACCAGCCTGGGCAACACGGTGAATCCCCATCTCTACAAAAAAAAATACAAGAATTAATTGGGGCTGGTTGCATGCGGCTGTATTCCCAGGCTGAGGTGGAAGGACCATTTGAGCCGGGGAGTTCGAGACTGCAGTAAGTTGTGATTGCGCCATTGCACTCCAGCCTGGGCGACAGAGCGAGACCCTGTCTTAAACAAAAAATACACTATATCTCCATGTCCCCAGTGGTTTTTTGTTTGTTTTGTTTTGAGACACAGTATTGCTCTGTGGCCCACGCTGGAGTGCAGTGGCGCAATCTCAGCTCTATGCAACTTCCACCTCCCAGGTTCAAGCGATTCTCGTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGCCTGTGCGGCCTGGCTAATTGTTGTATTTTTAGTAGAGACGGGATTTTGCTATGTTGCCCAGGCTGGTCTCAAACTCCTGACTTCAGGTGATCCTCCCACCTCGGCCTCCCAAAGTGTTGGGATTACAGGCATGAGCCACCACGCCCGGCCAAGACCAGCGAATTTTTTAATTTTTTTGTAGAGACGGCGTCTTGCCACGTTGCCCAGGCTGCTCTGGAACTCTTGGCCTCAAGTGATCCTCCTGCCTCAGCCCCCCAGTGTTGAGATTACAGGTGTCAGCCGCTACACTTGGCCACTAAGTGTTATATATATATGATTTTCATGGTTTCTCACATTAACCAGCTAAGAAAGGTGTTGTCTGCACTTCACAAATTAAGACACTGAGGCTGAAAAATGTGAAGCAGGCCAGGCATGGTGGCTCACACCTGTAATCCCAGCAATTTGGGAATCCAAGGTGGGAGGATCACTTGGGGCCAAAGTTCAAGACCAGCCTGGGCAACATAGCAAGACCTCATCTCTACAGAAAATTTAAAAAACTAGCTGCATGCCTGTAGTCCTAGCAGTGAGCTATGATCACACCACTTCACTCCAGCCTGGGCAACAGAGCAAGACCCTGTCTCAAAAAAACAAAACAAAACAGAAATGTGAAGCAATTTGTACTAGGTCACCTAGATAGTGAACACACCTGGACTGTAGCCCAGCATCTCTGATGCCTAAGCCTCTACCAATCAATGGAGACATGATATTGTATTGTGAAAAGTGATTTATAAAATCTTTACAACGTTGTGCTAACTAGAGCTGTCCCGCCCCAGTAGATTAAGAATAAGAACTATAGATATGTATACTGATCCCTTGTTGTGTGCTGGGTAATTTGCTAAGTGTTTAGCCTGAATCCTTATAACAAAGAGCTAGACATCATCCCTAATTTATCCTGTAGGAAACAAAGGCTCAGACCAGGTCAGCTAACTTACCTAAGATGACATCCCCCATTTGTGCCCGTTTCTGTCCTTTCAG
Seq C2 exon
ACATGGTCGCAGTTCTAGGGGAGACCACAGGACACCGCACCCTGAAGGTCCTCAGGGACCAGATGAGGAGGGATCCAGAGGGTGCCCAGATCCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167113-COQ4:NM_016035:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.370 A=NA C2=0.495
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:
CGCCGGCCCGCTATACTC
R:
GGCACCCTCTGGATCCCTC
Band lengths:
190-2185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)