DreINT0050871 @ danRer10
Intron Retention
Gene
ENSDARG00000104733 | coq4
Description
coenzyme Q4 homolog (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-060526-218]
Coordinates
chr5:53775797-53776393:-
Coord C1 exon
chr5:53776271-53776393
Coord A exon
chr5:53775894-53776270
Coord C2 exon
chr5:53775797-53775893
Length
377 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
ATATTATTGTGTTAAAACAGATA
3' ss Score
5.79
Exon sequences
Seq C1 exon
TACTCACCGAAGAGAAGTATGATGGAAGATTGTATCCAAGCCACATTCCAACAAGCACTGTTCAGAAGGCTATTTTGGCTGTAGGTTCCGGAGTTGCTGCCCTTAAAAACCCCTATAGACATG
Seq A exon
GTGAGGCATTCATTGATTATTCATTACATTTGAGCTTTACACTAACTACTGTATGACCACAGTATGATGTCACACTAGTATTGAATGCATATTTAGCTTCTTTAAACAACACCTATTAGTTTCTTTTTCGGTCTCAGTGAGTGGAAAGTCCACAATTGTTTTAATGAGTTTTCTGTAAAACAACATAATCATTTTGTAAACTTTTTGCTTCCCTAAGTACGTTGGTTCCCAGATTTTAAATGCCGACCGTAACCAAACATCATTCCATAACAAACAGTTTTAAAAGGTGTAAGAGTGGTGAACGCTAGTATAAGTCTTAAGGTGTACAGTAATATTCATGAATCATACACTGTGTTTATATTATTGTGTTAAAACAG
Seq C2 exon
ATATGGTTGCAGTGCTTGGAGAAACCACAGGGCACCAGACCCTAATAAAGTTGAGAGATCGGATGAGAAATGACCCTGAAGGTTCTACTATTCTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104733:ENSDART00000169270:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF050198=Coq4=PU(13.5=71.4)
A:
NA
C2:
PF050198=Coq4=FE(14.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCACCGAAGAGAAGTATGATGG
R:
AGAAGAATAGTAGAACCTTCAGGG
Band lengths:
219-596
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]