RnoALTA0029057-2/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000016794 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:RGD Symbol;Acc:1310377]
Coordinates
chr3:8845040-8846125:+
Coord C1 exon
chr3:8845040-8845166
Coord A exon
chr3:8845735-8845921
Coord C2 exon
chr3:8845922-8846125
Length
187 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
ACCTGTTGCACTCTCTGCAGGCT
3' ss Score
9.24
Exon sequences
Seq C1 exon
GGGGTCTGGTCCTGATCCACGGAGAAGTGGTGCACAAGAGTGAGCAGAACCTTTCCGACCACTCACGCCAGGCCTACACTTTCCACCTCATGGAGGCCGCCGGCACTGTCTGGAGCCCAGGGAACTG
Seq A exon
GCTTCAGCCCACGACTGAGCTGCCCTTCCCACCACTCTACATCTAAAGGCCCTGGCAGAGCAGGGCTGGTGAGGGTCCCCCACCCTCAGCCCCAATGCTACCAACACCAGGGCCTCTGGCTGCAACCAAGCGCGCATCTTCTTGTATGGCTTTCTTTCTGATGTTGTCTGTGACCTTGGTCCACCAG
Seq C2 exon
ACAGGGAGCCAAGAAGCAGAAATGACTGAGCAGGAGCCCAAGCTCGGGGAGAGGAGGGACTTCCTCTAAAATTTTCTCTCTCTACACCTTCCTGTTCCAACCCAGCTTTCTGAAGTGTCCACTCGGCAGTGAAAGGATTCACTTGGGTTTTCTCTTGGATGGGTGTTTCTGTGTCAGGCACTGAATAAAGGCAACTTAAAATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016794-28-25,28-24,28-23-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057218=PhyH=PD(9.7=55.8)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCCTGATCCACGGAGAAG
R:
GCCGAGTGGACACTTCAGAAA
Band lengths:
248-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]