DreINT0112206 @ danRer10
Intron Retention
Gene
ENSDARG00000017910 | pdss1
Description
prenyl (decaprenyl) diphosphate synthase, subunit 1 [Source:ZFIN;Acc:ZDB-GENE-030131-4430]
Coordinates
chr24:5989329-5989626:-
Coord C1 exon
chr24:5989515-5989626
Coord A exon
chr24:5989439-5989514
Coord C2 exon
chr24:5989329-5989438
Length
76 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAT
5' ss Score
7.3
3' ss Seq
TCTGGCTTGATTGTTTGCAGGTG
3' ss Score
8.68
Exon sequences
Seq C1 exon
GCTATTCTGGCTGGAGATTTCATTCTGTCAGCGGCGTCCATGGCATTGGCTCGCATTGGGAACACTACAGTGGTTTCTGTGCTGTCACAAGTTATAGAAGACCTCGTGCGAG
Seq A exon
GTATATGACTTCATATTTATGATACGCGCTTTATAAAGTGGAGCTGTTATTAATATTCTGGCTTGATTGTTTGCAG
Seq C2 exon
GTGAGTTTATGCAGCTGGGCTCCAAAGAGAACGAAAACGAGCGATTCAAGCATTACCTCGAGAAAACCTTCAAGAAGACGGCCAGTCTGATTGCGAACAGCTGTAAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017910:ENSDART00000040865:6
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(14.2=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(13.8=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:
ATTTCATTCTGTCAGCGGCGT
R:
GACTGGCCGTCTTCTTGAAGG
Band lengths:
183-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]