RnoINT0109413 @ rn6
Intron Retention
Gene
ENSRNOG00000048849 | Pdss1
Description
decaprenyl diphosphate synthase subunit 1 [Source:RGD Symbol;Acc:2319976]
Coordinates
chr17:90051883-90053807:-
Coord C1 exon
chr17:90053666-90053807
Coord A exon
chr17:90051995-90053665
Coord C2 exon
chr17:90051883-90051994
Length
1671 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
TTTTATTCTTCTTTTTCCAGGCT
3' ss Score
10.4
Exon sequences
Seq C1 exon
AGAGATGCAAGCCAGACAGCGCTCCGTAGCCTTAGTTGCAGAAATGATCCACACTGCTACTCTGGTTCATGATGACGTTATTGACGATGCAAGTTCTCGAAGAGGAAAACATACAGTTAATAAAGTCTGGGGTGAGCAAAAG
Seq A exon
GTATGATGGTTTTTATTGTTACTTTGGAAAATCTTCCTTACCAAACCATACACTTACGGGATTGCAATTGCTTTTCAGATTTGTATATACTTGTTTGAATTTCTTTGAAATTCCAAAGAAGTGTTTGCATTGTCTCTGTAAAGGTCTTGACAGCAAAAACAAACTCAGTGATTCTCCTTAGTCTCTGTTGTTTTTATGTCAGTTTCTTCTAGTTATAAGGAAAAGCATTTTCATTAGTATTTCTTGCAGAATCCTACATTTTTCTGTTGGACTCAGATTACTTACATTGATTTGAACCCATAGCATTTGTTAATTTGCTGCATGTTCAAGAGTGTTAAAGCAAATAGAAACTAAAAACAGGAGAAATTTCAGAAATAGTGTTCTACCATCAAAACTTACCTTAAACAGAGCTTAATAAGATTTGTTATACATACAGGCGTATGCACACACACTCAATTTTTTTTATATTTGATATATATAGAAAGAGATTTATTATTTTATGGGTATGGGTAGTTTGCCTTCATGCATATGTATGTATATATATATACACACACCACTTGCATGCCTGGTGCTCAAGGGTACCAGAAGAGGGCATTGGATCCCCTAGTAGTGGGTTTATAGGGGGTTAGAAGACACCATGTGGGTGCTGGGAATCAAACAGGGGTCCTTTAGAAGATCATCCAATGCTGTCAACTGCTGAGCCATTTCTCTGGCCCCTGTATATTTATTTTAAAACTTATTTCCTATTTTATTAGCATTACTTGAATAGGTACTTTGGATTGAGGATTTATAAGTTGTAGGTTGAAGAATGAAGTTGAACAAATGAAAAAGAGGCAGTCCTTCCTTCTGTGAGTAGGCATCCACCCACACATGTGCCTCCATGGGCAGTCTTACACAGTTGAGGACAAAGCAAAGTCCCTGAAGTGTCTTTCTCTTACAACTGCTCTTCACACAAAGCATATTGGTCCCTGCTACGTAGTTAGACTCTCATGTGCTGGTAGGCTTAATGGAATGAATTTTGCACATGATGGGTAATTAGTAACATATACTAGTAGTATCTCTGATATTAGAGAACAGGTGAGTATTAAAATGGTTATTTTGAAAATCTATTACCTTAGGGCAGGGGTGTGCTCTGTTGTTAGAACTCGTAGCAAATATAAAAGCACTTGGATTCAACCACTGCATCCTCATGAATGAATGTGCTGATGAGGTCTTAATCCCAGGACTCAGGAAGGGCAGGCAGGGACCGCGTCAAGTCTGCTTTGCCATCCAGTAGTAGTGCAGACAGCCCAGCTTGCTTGCGCTTGCTTCTACCCTCCTTCCTTCCTTCCTCCTTTTTTTCTTTCCTTTCTCTCTCTCTCTCTCTTCTCCTCTCTCTCTTTCTCTCTCTCTCTCCTCTCTCTCTCTTGAGACAGGTTTCTCTGTGTAGCCCTGGCAGTCCTGGAACATTATGTGAACTCTACCATTTCTGTGTAACAGAGTAGTACTGATGCCTATCTTTATAGATGTAATACGTGTATGATATAATTTGACTGTGTAATTTATAGCTGATAATTTGTTCTGGGCCCATTAATATCTTGAGTACCAGACTTAGACTGTGTGTGTGCTAGGTCTAACTACTGAGATAGCTGTGAACTTTTTATCTGTGGTATTTTATTCTTCTTTTTCCAG
Seq C2 exon
GCTGTTCTTGCTGGAGATTTAATTCTTTCTGCAGCATCCATAGCTCTGGCACGGATTGGAAACACAGCAGTTGTATCGCTGTTAGCCCAAGTTATTGAAGATTTGGTGCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048849:ENSRNOT00000071978:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034812=polyprenyl_synt=FE(17.9=100),PF073076=HEPPP_synt_1=FE(34.8=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(14.1=100),PF073076=HEPPP_synt_1=FE(27.4=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:
AGAGATGCAAGCCAGACAGC
R:
CACGCACCAAATCTTCAATAACT
Band lengths:
254-1925
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]