GgaINT0098078 @ galGal4
Intron Retention
Gene
ENSGALG00000007559 | PDSS1
Description
prenyl (decaprenyl) diphosphate synthase, subunit 1 [Source:HGNC Symbol;Acc:HGNC:17759]
Coordinates
chr2:15981451-15981790:-
Coord C1 exon
chr2:15981710-15981790
Coord A exon
chr2:15981565-15981709
Coord C2 exon
chr2:15981451-15981564
Length
145 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTG
5' ss Score
6.13
3' ss Seq
TGATCTTTATCTCCTCGCAGCTA
3' ss Score
8.89
Exon sequences
Seq C1 exon
GTTTCAATTCTAGGCTGCCCCGATCCCAAAGTTCACGAGATCGCATACCAGTACGGAAAAAACGTTGGCATTGCTTTTCAG
Seq A exon
GTAGTGCTTTTGTTGAAATAAGGGGAATCTTCACTTTTCCCAAATGCCTTAGAAACTGACGTGGGCTGTCTTAATTCTTTCTATAAATGTAATTTTAACAAGGATTTAAAAAAAATGCCTTAAGCTGATCTTTATCTCCTCGCAG
Seq C2 exon
CTAATAGATGATGTGTTGGATTTCACATCGTGTGCTGACCATCTTGGGAAACCGGCAGCAGCAGATCTCAAGCTTGGGTTAGCCACAGGCCCTGTCTTGTTTGCTTGTCGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007559:ENSGALT00000012224:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034812=polyprenyl_synt=FE(9.9=100),PF073076=HEPPP_synt_1=PD(2.3=11.1)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(14.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTCAATTCTAGGCTGCCCCG
R:
CTGTCGACAAGCAAACAAGACA
Band lengths:
194-339
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]