RnoINT0109416 @ rn6
Intron Retention
Gene
ENSRNOG00000048849 | Pdss1
Description
decaprenyl diphosphate synthase subunit 1 [Source:RGD Symbol;Acc:2319976]
Coordinates
chr17:90044087-90044404:-
Coord C1 exon
chr17:90044324-90044404
Coord A exon
chr17:90044201-90044323
Coord C2 exon
chr17:90044087-90044200
Length
123 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGGT
5' ss Score
7.53
3' ss Seq
CTCATCTTTCCTTTTGCCAGCTC
3' ss Score
7.82
Exon sequences
Seq C1 exon
GTCTCTGTCCTGGGTTGCCCTGACCCAGTGGTGCATGAGATTGCCTATCAGTATGGGAAAAACGTTGGAATAGCTTTTCAG
Seq A exon
GTCGGTATGCTTGTTTGTGGGAACAGTGACATAGGCACAGCCTGCATTCTCCCCAGTGTGGAGTGTTCAAAGCATTGACGACAGTGGCAGCTCAGTAGGTGTACTCATCTTTCCTTTTGCCAG
Seq C2 exon
CTCATAGATGATGTATTGGATTTCACCTCATGTTCTGACCAGATGGGCAAGCCAACATCTGCAGACCTGAAGCTAGGCATAGCCACCGGCCCTGTCTTGTTTGCTTGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048849:ENSRNOT00000071978:8
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(11.6=100),PF073076=HEPPP_synt_1=PD(3.0=14.8)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(14.1=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:
TCTCTGTCCTGGGTTGCCC
R:
TGGCAAGCAAACAAGACAGGG
Band lengths:
190-313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]