DreINT0113730 @ danRer10
Intron Retention
Gene
ENSDARG00000029905 | phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-041114-159]
Coordinates
chr21:4350333-4350533:+
Coord C1 exon
chr21:4350333-4350408
Coord A exon
chr21:4350409-4350485
Coord C2 exon
chr21:4350486-4350533
Length
77 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGG
5' ss Score
5.28
3' ss Seq
TGTGACGCTTGTGTTTTCAGGAG
3' ss Score
9.4
Exon sequences
Seq C1 exon
GGAAATGCAGACTATTTCATCACCAGTGGAGATAAGATCCGTTTCTTCTTTGAGAAAGGAGTGTTTGATGATAAAG
Seq A exon
GTTTGGGATTCAGTTGTTTTGTTTGCTGTGCAGAGATGAGGAAATCCATCCTAATAATGTGACGCTTGTGTTTTCAG
Seq C2 exon
GAGAGTTCGTCGTGCCGAAAGAACAATCCCTGAATAAAATCGGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029905:ENSDART00000147187:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(10.1=100)
A:
NA
C2:
PF057218=PhyH=FE(6.5=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:
TGCAGACTATTTCATCACCAGTGG
R:
CATGGCCGATTTTATTCAGGGA
Band lengths:
119-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]