DreINT0112207 @ danRer10
Intron Retention
Gene
ENSDARG00000017910 | pdss1
Description
prenyl (decaprenyl) diphosphate synthase, subunit 1 [Source:ZFIN;Acc:ZDB-GENE-030131-4430]
Coordinates
chr24:5989159-5989438:-
Coord C1 exon
chr24:5989329-5989438
Coord A exon
chr24:5989240-5989328
Coord C2 exon
chr24:5989159-5989239
Length
89 bp
Sequences
Splice sites
5' ss Seq
GCAGTATGT
5' ss Score
5.57
3' ss Seq
CTGCTTTATTTCAATCTTAGGTG
3' ss Score
8.88
Exon sequences
Seq C1 exon
GTGAGTTTATGCAGCTGGGCTCCAAAGAGAACGAAAACGAGCGATTCAAGCATTACCTCGAGAAAACCTTCAAGAAGACGGCCAGTCTGATTGCGAACAGCTGTAAAGCA
Seq A exon
GTATGTACGTTCTGTCTTCACAATAATAAGAGGAGCTGAAAGAGCTAAAAGAGAAGCTCAACACCAGCACTGCTTTATTTCAATCTTAG
Seq C2 exon
GTGTCTATTCTGGTGAACTCTGACCCTGAGGTGCATGAGATCGCATATCAGTATGGACGAAACGTCGGAATTGCATTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017910:ENSDART00000040865:7
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(13.8=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(10.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTATGCAGCTGGGCTCCAAAG
R:
AATGCAATTCCGACGTTTCGT
Band lengths:
181-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]