GgaINT1021466 @ galGal4
Intron Retention
Gene
ENSGALG00000004565 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr17:5394147-5395091:+
Coord C1 exon
chr17:5394147-5394179
Coord A exon
chr17:5394180-5394932
Coord C2 exon
chr17:5394933-5395091
Length
753 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ACCCCATGTCCCCCTTTCAGTTC
3' ss Score
10.83
Exon sequences
Seq C1 exon
ATGGCGTCTGTCACCCAACACCAGATGCAGAAG
Seq A exon
GTAAGGGAGCAGCAGGCAGGGAACACGCTTGCACTGTTTGCAAGGCACGGGCGCTCCGTGCTGAACCAGCGCTCAGGTCCAGCAGAGATCTGCTTTGCACACGCTTTGTATTCTGCTCAGCTCCGTGCATTGCGTTCGTTCTGAGCCTGTGGAAACCCCGCTGTGGGTGCAAACTTGCAGGGGGCTGCGTGCCTGCAGAGCTGCTCTGGGAATTTCTCTTGTGTCCTTCTGATTCCTGCTCAGCTGTCACTGTGAGGCTGAGCTCTGTCCCTGAGGATAATCCTCATGGTGTTCTATATAAGGAAGCAGTGCCAGCGGAGTTTGCTTCATTTCGTAGGGCGCTGTGTAGTCAAACCTGAGAACCACCCACGGATTTCTCCCTTAGAGAAAATCACTTTTTTTCTTCTGGCTCGTAAAGGCATCTTCTTATTTGGAACCTGGAAATGAGTGCTCTGTTCGTTTTAGCAGTATCTGTGATTTAAGTATTGCTGGTCACGTGGCTACGATAAGACATCCTTAAACCATGAGGGCTCAGCAATGCTGTCTACTCTGGTTTCTGGGTGGGGAGGTGAAATGTGTTCCCCTTAATTCTATGGGATCTGAGCCTGTTTAAGGACTGATCTTTCTTGGCAATACCCCTCTTGAACTTTACAAATAGAAGAGCAGCGCTTCAGTTTTGTCATTTGTGGATGAGAGAGAAACATGTCAGAAATACCCCAGGAGGAGGGCAGCCACCCCATGTCCCCCTTTCAG
Seq C2 exon
TTCCGTGAGGATGGTTTCCTTGTCCTGGAGCACTTCTTCAGCCCTGAGGAGTGTGACAGCATGAGGAGCAGCATCCAGAGGATCCTGGATGGGATGGAGGTGCCACCACACTGCCGGACTGAGTTCTCCACCAAGGAAGAGGAGCAGCTCCAGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004565:ENSGALT00000007266:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.189
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF057218=PhyH=PU(21.0=98.1)
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:
ATGGCGTCTGTCACCCAACA
R:
CTGTGCCTGGAGCTGCTC
Band lengths:
192-945
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]