GgaINT1021468 @ galGal4
Intron Retention
Gene
ENSGALG00000004565 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr17:5394933-5395468:+
Coord C1 exon
chr17:5394933-5395091
Coord A exon
chr17:5395092-5395392
Coord C2 exon
chr17:5395393-5395468
Length
301 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
CAGGCTCTTCTCTCTGACAGGGT
3' ss Score
8.35
Exon sequences
Seq C1 exon
TTCCGTGAGGATGGTTTCCTTGTCCTGGAGCACTTCTTCAGCCCTGAGGAGTGTGACAGCATGAGGAGCAGCATCCAGAGGATCCTGGATGGGATGGAGGTGCCACCACACTGCCGGACTGAGTTCTCCACCAAGGAAGAGGAGCAGCTCCAGGCACAG
Seq A exon
GTACCTGCAGGGCAGGGCTGGTCCCATGCAGCCCTGGGAGAGAAGGGGAAAGGCATTGGCTTTGCAGCTTTCTGCTGGTATTTGTTGGTAGCCTGTGTGCCAGGCTGTAGTCCTGGGGAGTGCCGAGAGGTTTAATGTTGAAGGAACGCAGTCGGTATTTGTAGGAATGATTTCTATTGACTGTGCTTTGTTTCTGCTGCTGCTTGGTGGGAAAAAGATGCAGGTGAGTGTTATCTCTGATTGAAGGTTTGGCTGTGTGTTCATGGTGATGCTGTCTTTACCAGGCTCTTCTCTCTGACAG
Seq C2 exon
GGTAGCTCGGATTATTTCCTCACCAGTGGAGACAAGATCAGGTTCTTCTTTGAGAAGGGTGTTCTGGATGAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004565:ENSGALT00000007266:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF057218=PhyH=PU(21.0=98.1)
A:
NA
C2:
PF057218=PhyH=FE(10.1=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:
GGTTTCCTTGTCCTGGAGCAC
R:
CTCTCTCATCCAGAACACCCT
Band lengths:
223-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]