GgaINT1021473 @ galGal4
Intron Retention
Gene
ENSGALG00000004565 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr17:5397351-5397780:+
Coord C1 exon
chr17:5397351-5397372
Coord A exon
chr17:5397373-5397651
Coord C2 exon
chr17:5397652-5397780
Length
279 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCCACTGCTGTTCATCACAGTGA
3' ss Score
6.36
Exon sequences
Seq C1 exon
CAACCCGGCATCGGCGGGGAAG
Seq A exon
GTGAGCTTTGTGTGTCTGTATTACAGCACAGGTAGTCCTTCAGGAGAGGATTGTGACCAGGTAAAGCAGGCACAGGGCTGCCCGGAGAGGTGGCGGTGCCCCATCCCTGCGGACACCCGAGATCAGAGCCGGGATGGGGCTGTGAGCGCTGACAGAGCTGTGTGTGTCCCTGTGCGCTGCGGGGAGTTGGGCCGGGCGGCCTTTAGTTGTTAGTGCCCCCACCTCGCAGTGCTGGCCCCAGGCACGCTCAGACCCCGACCCCACTGCTGTTCATCACAG
Seq C2 exon
TGACACCACACCAGGACGCCACGTTCCTGCACACGGAGCCCCTGGGCCGGGTCCTGGGCTTCTGGATTGCACTGGAGGACGCCACGCAGGAGAACGGCTGCCTGTGGTTCATTCCCGGCTCCCACACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004565:ENSGALT00000007266:7
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=0.045
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(2.8=100)
A:
NA
C2:
PF057218=PhyH=FE(17.3=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]