RnoALTA0028620-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000048849 | Pdss1
Description
decaprenyl diphosphate synthase subunit 1 [Source:RGD Symbol;Acc:2319976]
Coordinates
chr17:90053666-90060391:-
Coord C1 exon
chr17:90060261-90060391
Coord A exon
chr17:90053808-90053890
Coord C2 exon
chr17:90053666-90053807
Length
83 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGT
5' ss Score
7.53
3' ss Seq
AATAAAATTCTTTATCCTAGATG
3' ss Score
6.34
Exon sequences
Seq C1 exon
GAACTGCACATCTCCACCAGAGAACTGAAGGACATGTCTGAATACTACTTCGATGGCAAAGGAAAAGCCTTTAGGCCGATTATTGTGGTGCTAATGGCCCGAGCGTGTAATATTCATCATAATAACTCCCG
Seq A exon
ATGCGATATCCAGTTTTCACAAGATGATTGCTGAGAAGGTTCTAGGCGGCGTCTGTTAAACAGCATTGCTTTCTGTTAACTAG
Seq C2 exon
AGAGATGCAAGCCAGACAGCGCTCCGTAGCCTTAGTTGCAGAAATGATCCACACTGCTACTCTGGTTCATGATGACGTTATTGACGATGCAAGTTCTCGAAGAGGAAAACATACAGTTAATAAAGTCTGGGGTGAGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048849-4-5,4-4-2/2
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=0.023 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0034812=polyprenyl_synt=PU(13.7=81.8),PF073076=HEPPP_synt_1=PU(5.9=18.2)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(17.9=100),PF073076=HEPPP_synt_1=FE(34.8=100)
Main Inclusion 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:
GAACTGCACATCTCCACCAGA
R:
TCTGCAACTAAGGCTACGGAG
Band lengths:
173-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]