DreINT0050872 @ danRer10
Intron Retention
Gene
ENSDARG00000104733 | coq4
Description
coenzyme Q4 homolog (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-060526-218]
Coordinates
chr5:53773854-53775893:-
Coord C1 exon
chr5:53775797-53775893
Coord A exon
chr5:53773987-53775796
Coord C2 exon
chr5:53773854-53773986
Length
1810 bp
Sequences
Splice sites
5' ss Seq
TCTGTATGT
5' ss Score
3.86
3' ss Seq
TAATTCCTAATCATTTACAGCTA
3' ss Score
6.11
Exon sequences
Seq C1 exon
ATATGGTTGCAGTGCTTGGAGAAACCACAGGGCACCAGACCCTAATAAAGTTGAGAGATCGGATGAGAAATGACCCTGAAGGTTCTACTATTCTTCT
Seq A exon
GTATGTCTCATTTATTTACTCTGAATAGTTTTATTAAAATTAGTACTCGCAGCATCCATAAATGACACCTGTGGTCTGTTGCATGAATTCTGGCATTTGGAGGAGGTTTAGATCATAACACTCTTTGTAGACATTCTCTGGGTGTAATTCTGAGTTTTTGATTAACTGTAGAGACCATTTAATTCAATTCATGTTTGTTTATATAGCACTTTTATAATGTAGATGGTGTCAAAGCACCTTAACATAGAAGTGTTTAAAATATAAATAGAAAATTTTATATTTCATAAGGTCATGAGTTGCACTCATTAAATAATTGCTTTGTATAGTTTTTATTTGACATTGTTCAGGTGATACAAAACACAGACGTTTCGGCACAATGTCTTCCTCAGTGTTTGACACAATCCTCTCCACCGTTTTGTCCCACAGTCAATCACATTGCGTTATTAGTAAGACGGCCACTCGATAATTAAAAGCAATCTCATTTTCATTTCAATATACCATAATTAACCACACAAGAAATATTTACCTTCACCTTCAAAACATTATTTCATAGCATATCAATTATCATCATTTACTTATTCATGTCTACATTGATGCAATTAAATTTCTACAGTCCAAAACATTAAAAAAATACATTTTCATCTCATTATTTGTATCATTACATCTTCAAAATCCATGATTTACAATATTACAGCTAAACAACAAACTGTTAAAGAAACACAGAAAGGTTCAATTTCTCATTCATTCCTCTTGGTGTAAGTGATTTTAATTTTTGAATTCAGATCGCTTCTCTTTGTAATAATCTTTTATTCAGATTACCTCCTCTATGTGACTCAAATACTTCTTCGATTCCTATGCTATCTAGTTGTTTAACGTCTAGTCCAAAATCTATAAAATGTCTTGCTACTGCCAAAGTTATATCTTGTCATCTAATTAAGTTTTCTAATTCGCTACTTCAACTGACGTGATGACTTTTACATCGTATATTGATATATGAAAATGAGATTGTTTTTAATTATCGAGTGGCCGTCTAACTAGTAACGCAATGTGACTGACTGTGGGACAAAACGGTGGAGTGAGAGGATTGTGTCACACTGAGGAAGGCATCGTGCCGAAACGTCTGTGTTTTGTATCACCTGAAGAATGTAAAATTAAAACTACAAAGCAACTATTCAATGAGTGCGAATCATGACCATCTGAATAATACAATATGTTAAAATGTTTTATATATTTAGATGAATTTGTTCAATATTGAATGCAATTTACATAAATATATGCAGTTTAAATCATAGATAATAATCATTATTTGTAAACATTAGAAGCAATTAACAACTTTACGATCTTATGTGCAGTTTTATTTTTTTTGACACATTTTTAAAATATAAATGTCCTTACAGAAAATTCATATCAGCATCACACAAATCTCGAGTTATTAAAGGTTTAATTCTTGTAAATAGTGAGTACATTTTCAGGTCAGGAACTAAATGGTCATTTTTCCAAAGCAAAAATGTTTCACTTTTGAAACTTGTTTGATGCTCATGTGTTTTTTTCTGTGGGGACGGGGGAGTGGCTTTATAGCATCTGTTTATATATATTTCACCTTTCTTACAGCTGATTGGTCCAGTTTTGGTGGATGTTAGGCGTTTAGTGTAAGCTGATATCCTGTAAACAAAAACAAAAATCTTCTTGAGCCTGAAACCTCGATTGAGTTGAGAATACTCACAAACCAAACAGACTAACATGGCTAAAATCCATAGCTGACTTTGTGCAACAGTTCTCTATTTCCTTTATAATTCCTAATCATTTACAG
Seq C2 exon
CTATATTTATTTCTGGTATTTTGCCTCTAGAGAGCGCCCAAGGATCCGCCTATCTACATTAGACCTTTCTAATATGTCTGCCTTGCCAGATGGGACTTTAGGAAGAGAATATCTACGTTTCCTTGAGGAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104733:ENSDART00000169270:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF050198=Coq4=FE(14.4=100)
A:
NA
C2:
PF050198=Coq4=FE(15.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTTGCAGTGCTTGGAGAAA
R:
TCCTCAAGGAAACGTAGATATTCTCT
Band lengths:
223-2033
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]