DreINT0113731 @ danRer10
Intron Retention
Gene
ENSDARG00000029905 | phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-041114-159]
Coordinates
chr21:4350486-4350776:+
Coord C1 exon
chr21:4350486-4350533
Coord A exon
chr21:4350534-4350720
Coord C2 exon
chr21:4350721-4350776
Length
187 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
TTTGCATTTCTTCCCCACAGCTC
3' ss Score
11.07
Exon sequences
Seq C1 exon
GAGAGTTCGTCGTGCCGAAAGAACAATCCCTGAATAAAATCGGCCATG
Seq A exon
GTGGGTGTTTAAAGGGACAGATCATGAAAAAATGAACATTTGCTGTTTGTTTACTCACTCTCAAGCTGTACAAGAGTAAATGAACACCAAATGTACATTGAGAGGTGAACTGTCGCTTTAAGAAATATTTAAGATATTCACATTTAAAGCACTGTATCTCTAATATATTTGCATTTCTTCCCCACAG
Seq C2 exon
CTCTGCATGCTTATGAGCCGCTGTTTAAAAGAGTCACCCACTCACCCAAAGTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029905:ENSDART00000147187:5
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(6.5=100)
A:
NA
C2:
PF057218=PhyH=FE(7.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGTCGTGCCGAAAGAACAA
R:
TGAACTTTGGGTGAGTGGGTG
Band lengths:
98-285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]