BtaALTA0021554-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000012945 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:HGNC:8785]
Coordinates
chr7:63191044-63191702:-
Coord C1 exon
chr7:63191555-63191702
Coord A exon
chr7:63191145-63191147
Coord C2 exon
chr7:63191044-63191144
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TCTTTCCTGTCTGATCACAGCAG
3' ss Score
6.76
Exon sequences
Seq C1 exon
GAATTCTCCCGTTTCCACGAGGAGATCACTCCCATGCTAGATGGGATTACCAACAACCGCAAGGAGTGGAAAGCGCTTGCTGATGAGTATGAGACCAAGATGAAGGGGCTGGAGGAGGAGAAGCAGAAACAGCAGGCAGCCAACCAAG
Seq A exon
CAG
Seq C2 exon
CCGCAGGAAGTCAACACGGCGGAAAGCAACCTGGGGGCGGGCCTGCATCCAAGTCTTGCTGCGTCCAATAGCAGAGCGAGGACCCAGGGCCCAGGCCGGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012945-23-24,23-23-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.340 A=NA C2=0.917
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PD(7.6=38.0)
A:
NA
C2:
NO
Main Skipping 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:
GAGAAGCAGAAACAGCAGGCA
R:
CTGCTATTGGACGCAGCAAGA
Band lengths:
105-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development