GgaINT1021471 @ galGal4
Intron Retention
Gene
ENSGALG00000004565 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr17:5396975-5397271:+
Coord C1 exon
chr17:5396975-5397030
Coord A exon
chr17:5397031-5397208
Coord C2 exon
chr17:5397209-5397271
Length
178 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TGTGGAAAGTTTCTTTCCAGGAG
3' ss Score
3
Exon sequences
Seq C1 exon
CCTTGCACGCTCACGATCCTGTCTTCAAGCAGATCACTCACTCCTCCAAGGTGCAG
Seq A exon
GTAAGCTGAGCCGATAGAGCTGTCTGACAGAAAGCTAAATGATGGGATGGTCAGCTTGAGTATTCTAGACTCCTAAGTACAACGTTTTTGAACATAAAAGGACAGGATACCCACAGAAAATAGCGCTTTGTGGTGTGCAGAAAGCAGCAAACGTGAACTGTGGAAAGTTTCTTTCCAG
Seq C2 exon
GAGCTGGGGAGAAAACTGGGTCTGGAGAGACCAGTGGTTGTGCAGAGCATGTACATCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004565:ENSGALT00000007266:5
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(7.3=100)
A:
NA
C2:
PF057218=PhyH=FE(8.1=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:
CACGCTCACGATCCTGTCTTC
R:
CTTGAAGATGTACATGCTCTGCAC
Band lengths:
114-292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]