BtaALTA0021636-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000016471 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:1924599-1925312:-
Coord C1 exon
chr18:1925164-1925312
Coord A exon
chr18:1924681-1924683
Coord C2 exon
chr18:1924599-1924680
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGATTTCTCCAACCGACCAGCAG
3' ss Score
1.35
Exon sequences
Seq C1 exon
TCCACCGGGGATCAGGCATTAGAAATTCTCCAGTACCTCTTCTCCAACGACCTTGACGTGCCCGTGGGCCACATCGTGCATACCGGCATGCTCAACGAGCGTGGTGGGTACGAAAATGACTGCAGCATAGCCCGGCTGAGCAAGCGCAG
Seq A exon
CAG
Seq C2 exon
GTCCATTGTTGGGCTTGGCTTAAGAAGTACATGCCAGAAGACAGCAACCTGATTCTGGAGGATGTCACCTGGAAATACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016471-28-16,28-15,28-14-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0157116=GCV_T=FE(22.5=100)
A:
NA
C2:
PF0157116=GCV_T=FE(17.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
GAGCGTGGTGGGTACGAAAAT
R:
AGGTTGCTGTCTTCTGGCATG
Band lengths:
103-106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development