BtaALTA0022038-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000038831 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr11:99448981-99453739:+
Coord C1 exon
chr11:99448981-99449139
Coord A exon
NA
Coord C2 exon
chr11:99453664-99453739
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CTGATGTCCCCTCTCCACAGGGC
3' ss Score
12.37
Exon sequences
Seq C1 exon
TTTCAGGAGGATGGATTCCTGGTGCTGGAAGGGTTCTTATCTGCAGACGAGTGTGAGGCCATGCAACGGAGGATTGATGAGATCGTGGCCAAGATGGATGTCCCTCTCCACTGTCGCACGGAATTTTCTACCCAGGAGGAGGAGCAGCTGCGAGCCCAG
Seq A exon
NA
Seq C2 exon
GGCAGCACAGACTATTTCTTAAGCAGCGGTGACAAGATTCGATTCTTCTTTGAGAAAGGCGTCTTTGACAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038831-9-7,9-6-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057218=PhyH=PU(21.0=98.1)
A:
NA
C2:
PF057218=PhyH=FE(10.1=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGATCGTGGCCAAGATGGA
R:
ATCGAATCTTGTCACCGCTGC
Band lengths:
125-150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development