GgaINT1021469 @ galGal4
Intron Retention
Gene
ENSGALG00000004565 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr17:5395393-5395623:+
Coord C1 exon
chr17:5395393-5395468
Coord A exon
chr17:5395469-5395575
Coord C2 exon
chr17:5395576-5395623
Length
107 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
ATTCTGGTTTTGTCTCATAGGCA
3' ss Score
8.44
Exon sequences
Seq C1 exon
GGTAGCTCGGATTATTTCCTCACCAGTGGAGACAAGATCAGGTTCTTCTTTGAGAAGGGTGTTCTGGATGAGAGAG
Seq A exon
GTGAGCCCCAAACCCACTCAAGGCAACGCAAGGAGGCAGGGCTGGGTTCCATCCCTGCAAGCATTCCTGCTTTGCTAACCACGTTAAATTCTGGTTTTGTCTCATAG
Seq C2 exon
GCAACTTCCTAATTGCAAAGGAGAAATCTGTCAGTAAGATTGGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004565:ENSGALT00000007266:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(10.1=100)
A:
NA
C2:
PF057218=PhyH=FE(16.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTAGCTCGGATTATTTCCTCACC
R:
CATGGCCAATCTTACTGACAGA
Band lengths:
124-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]