RnoINT0109414 @ rn6
Intron Retention
Gene
ENSRNOG00000048849 | Pdss1
Description
decaprenyl diphosphate synthase subunit 1 [Source:RGD Symbol;Acc:2319976]
Coordinates
chr17:90051680-90051994:-
Coord C1 exon
chr17:90051883-90051994
Coord A exon
chr17:90051790-90051882
Coord C2 exon
chr17:90051680-90051789
Length
93 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
ACCCTTCTCCTTCTTGATAGGTG
3' ss Score
11.15
Exon sequences
Seq C1 exon
GCTGTTCTTGCTGGAGATTTAATTCTTTCTGCAGCATCCATAGCTCTGGCACGGATTGGAAACACAGCAGTTGTATCGCTGTTAGCCCAAGTTATTGAAGATTTGGTGCGTG
Seq A exon
GTAAGTCGATTTCTTTTTTATTTAGAATACCAATTCTGGTATTTAGCCAGGCAATAAAACCATGTCTCAAATAACCCTTCTCCTTCTTGATAG
Seq C2 exon
GTGAATTTCTTCAGCTAGGGTCAAAAGAAAATGAGAATGAAAGGTTTGCCCACTACCTTGAAAAGACCTTCAAGAAGACAGCCAGCCTGATAGCCAACAGTTGTAAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048849:ENSRNOT00000071978:6
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(14.1=100),PF073076=HEPPP_synt_1=FE(27.4=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(13.7=100),PF073076=HEPPP_synt_1=FE(26.7=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:
ATCCATAGCTCTGGCACGGAT
R:
GCTATCAGGCTGGCTGTCTTC
Band lengths:
171-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]