DreINT0112204 @ danRer10
Intron Retention
Gene
ENSDARG00000017910 | pdss1
Description
prenyl (decaprenyl) diphosphate synthase, subunit 1 [Source:ZFIN;Acc:ZDB-GENE-030131-4430]
Coordinates
chr24:5991606-5991968:-
Coord C1 exon
chr24:5991838-5991968
Coord A exon
chr24:5991748-5991837
Coord C2 exon
chr24:5991606-5991747
Length
90 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGA
5' ss Score
4.74
3' ss Seq
CCTCCATGTGCCCTCCTCAGGGT
3' ss Score
9.73
Exon sequences
Seq C1 exon
CAGCTGCTGGTGTCTAAAGCAGAGCTGAAAGCGCTGTGTGATTATTACTTTGACGGGAAGGGAAAAGCTTTTCGACCAATGATTGTGATCTTAATGGCTCGAGCTTGTAATGTCCACAGCAATAAAGAGGG
Seq A exon
GTGAGAAAACGCTTCTGAACTGTGTTTGTGTTGTATTGATAATGTAATTAATCAATCAGTGTTTATAAGTCCTCCATGTGCCCTCCTCAG
Seq C2 exon
GGTTTTGCTACCGGCGCAGCGCTCAATCGCTATGATCTCTGAGATGATCCACACCGCCAGCCTGGTGCATGATGACGTCATTGATGACTCGGACAAGAGACGTGGGAAAAACACCATTAATAATGTGTGGGGAGAGAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017910:ENSDART00000040865:4
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=0.021
Domain overlap (PFAM):
C1:
PF0034812=polyprenyl_synt=PU(13.4=79.5)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(18.0=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:
GCTGGTGTCTAAAGCAGAGCT
R:
GCGGTGTGGATCATCTCAGAG
Band lengths:
183-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]