BtaALTD0015867-1/3 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000000445 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:HGNC:8787]
Coordinates
chr26:14987432-14988171:+
Coord C1 exon
chr26:14987432-14987455
Coord A exon
NA
Coord C2 exon
chr26:14988062-14988171
Length
0 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
ATATGTCTATTTTCTTTTAGACA
3' ss Score
8.49
Exon sequences
Seq C1 exon
GTTCTCACCAGATGGATGTACACG
Seq A exon
NA
Seq C2 exon
ACAGGAAGACTGAAGAAATACTACACAGACCTTGAAGCCTTTGCCATGCTTGCTGCTGCCTTCTGCCACGACATTGACCACAGAGGCACCAATAATTTGTATCAGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000445-19-20,20-20,21-20-1/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PU(7.2=50.0)
A:
NA
C2:
PF0023314=PDEase_I=FE(14.5=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:
GTTCTCACCAGATGGATGTACACG
R:
GATACAAATTATTGGTGCCTCTGTGG
Band lengths:
127-211
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development