BtaALTA0021658-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000006529 | PDSS1
Description
Bos taurus prenyl (decaprenyl) diphosphate synthase, subunit 1 (PDSS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001100331]
Coordinates
chr13:18201961-18213467:-
Coord C1 exon
chr13:18213337-18213467
Coord A exon
chr13:18202062-18202102
Coord C2 exon
chr13:18201961-18202061
Length
41 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CATTGCTTTCTGTTAACTAGAAA
3' ss Score
5.81
Exon sequences
Seq C1 exon
GAGCTCTTCATATCTACAGCAGAACTCAGGGAAATGTCTGAATACCATTTTGATGGAAAAGGAAAAGCCTTTCGACCAATTATTGTGGTGCTAATGGCCCGAGCCTGTAACATTCATCACAATAACGCCCG
Seq A exon
AAATGTGCAAGCAAGCCAGCGTGCCATTGCCTTAATTGCAG
Seq C2 exon
AAATGATCCATACTGCCAGTCTGGTGCATGACGATATCATTGATGATGCAAGTTCTCGGAGAGGAAAACACACCGTTAATAAGATCTGGGGTGAAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006529-8-12,8-11-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034812=polyprenyl_synt=PU(13.7=81.8)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(17.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCAGAACTCAGGGAAATGT
R:
TCATGCACCAGACTGGCAGTA
Band lengths:
147-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development