DreINT0050870 @ danRer10
Intron Retention
Gene
ENSDARG00000104733 | coq4
Description
coenzyme Q4 homolog (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-060526-218]
Coordinates
chr5:53776271-53777426:-
Coord C1 exon
chr5:53777050-53777426
Coord A exon
chr5:53776394-53777049
Coord C2 exon
chr5:53776271-53776393
Length
656 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
CCTTTCTCTCTTGTTCTCAGTAC
3' ss Score
9.03
Exon sequences
Seq C1 exon
TGTTAGTGGCAAGAGAGCGTTTGATTGATTATAATGTGATGAGAGAGCTTTACATGTTTATATCAGTTTTATCTTCTATCTTCTAAACGTGAATTTTGTCACTGTTTTAGGGCACACTAGCGTATAAATATCTTTATTTATTTTAATTCCATGGGACCTTTAGGTGCCTGACTAGTGCACATGATGTCTCCACTGCATGCTGGCCATGTGGACGAAAAAGGAGCAATTAAAATCATACTACATACATTCTACTACATGCTCAATCAGCTTGCCATAACGTTACCAGTTCCTGTAACTGATGATGCGGGGGTTACCGGGTGCTTTCCTTGGTTCTTTTAAAACCTCTTACGGATATTTAAGTCAACGTTTATACGGAG
Seq A exon
GTATTTTAATTTAAAAAAATTAGTTCCCTAACAAATGTAATGTTCTACATTGAGAGTGTAGCCAGCGTACTTCATAATAAAATGTCTGACCTTGCTAGTAGCTCAATGGCTAACTAACTTAGAATTGTGACAGTTTATATGCTGCGTTTAAAAAAAATTTGCAAATTAATAGGGAGTTTTCACACTTCCTGAATGCCGCGAACGTTAGTCAGACATCTGACTTTGAAGTCCTGGTAAATCGCATAAACCCGATTTCAGGCAGACGCGTCATTTGACATCACTTTACAGATGGCGGCTAGTTCTCTGAGGTTAGCGCAGAGCTATTTATGTACACATTAAACTTTTAAGTGCAGCTCAAAATGAGTGGGAACCCTACAAATAGAGGGTATATCTGAGATTATATCAGCTCGTGCATTTCTTTTTTTGTCAGCTGCATCAAAGGACGGTTTTTTTTTTTTCTTTTTTATAGTTGGCACAATAACACGAATGTCGAATTTGACCACTGACAAGCATTAAGAAATAATAAGACATTAAAAATTTTTGTTTATTATTGCACAAATCTTAAAGATGTCCTTTTCCCTCATTATAAGCTGCCATAATACAACATCTTTTAACACATGAATAAAGTTTAAGATACCTTTCTCTCTTGTTCTCAG
Seq C2 exon
TACTCACCGAAGAGAAGTATGATGGAAGATTGTATCCAAGCCACATTCCAACAAGCACTGTTCAGAAGGCTATTTTGGCTGTAGGTTCCGGAGTTGCTGCCCTTAAAAACCCCTATAGACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104733:ENSDART00000169270:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.012
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF050198=Coq4=PU(13.5=71.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTAGGGCACACTAGCGT
R:
AGCCTTCTGAACAGTGCTTGT
Band lengths:
346-1002
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]