BtaINT0111160 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038831 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr11:99454196-99454399:+
Coord C1 exon
chr11:99454196-99454251
Coord A exon
chr11:99454252-99454336
Coord C2 exon
chr11:99454337-99454399
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGACCTCTGCCCCCTTCCAGGCT
3' ss Score
10.36
Exon sequences
Seq C1 exon
CCCTGCATGCCCTTGACCCCATCTTCAGGTGTGTCACACACTCCCACAAGGTGCAG
Seq A exon
GTGAGCAGAGGTGTCGGTGAGGGCGGGCAGGTAGGCCAGATGTGAGTGTGGGCAGGCTGGCTGTGTGACCTCTGCCCCCTTCCAG
Seq C2 exon
GCTTTGGCCAGAAGTCTGGGCCTCCAGATGCCTGTGGTGGTGCAGAGCATGTATATCTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038831:ENSBTAT00000055396:5
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(13.0=100)
A:
NA
C2:
PF057218=PhyH=FE(10.5=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:
CCCTGCATGCCCTTGACC
R:
CTTAAAGATATACATGCTCTGCACCA
Band lengths:
119-204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development