DreINT0112205 @ danRer10
Intron Retention
Gene
ENSDARG00000017910 | pdss1
Description
prenyl (decaprenyl) diphosphate synthase, subunit 1 [Source:ZFIN;Acc:ZDB-GENE-030131-4430]
Coordinates
chr24:5989515-5991747:-
Coord C1 exon
chr24:5991606-5991747
Coord A exon
chr24:5989627-5991605
Coord C2 exon
chr24:5989515-5989626
Length
1979 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TCTTTCTCTCTAATGTTTAGGCT
3' ss Score
8.39
Exon sequences
Seq C1 exon
GGTTTTGCTACCGGCGCAGCGCTCAATCGCTATGATCTCTGAGATGATCCACACCGCCAGCCTGGTGCATGATGACGTCATTGATGACTCGGACAAGAGACGTGGGAAAAACACCATTAATAATGTGTGGGGAGAGAGAAAA
Seq A exon
GTGAGTCATGTGTCTGATTATGAAATGTGTTGGGACAAATAATTAATCCCATCTTGATTTAAAAAATAAAAAATAATTCAAATGAATAAAATTATTAAAAAATAAAATTATTCAAATACATTTTTTAGATTTTTGCAGCTAAAATGGCTTAAAGAGAGAGTTAACCTAAAAATGAAATGGTCCTCTTTTACTTAACCTATACTTTTCAAAGCAAATGACAAATGATGATGGAAAGAACTAAAAATGATAGTTTGGAAATGGGGCGTTTTTAGACTAAAACGCCGTCTTTAAATTAATCTGGATTAGTGTAGACGGAGACCCAGAATTCCAAAGCTTAATCAAGTTTTTAAACAGGCAGTGGTCAATAATAGGCAAATTTCAGGTCAGTAACAAATGACAACTTTCTCTCAGATTGCAAACTCTCTCTCAAACAAACATTAGCTATCATATATGCATGTATTTTTTTTTTTTTTTACTTTTTTTTTATTTAATGTAGTATTTCCAGGTAAAATTGAGACTCAAAACAAAAGGCAGATTAGCATCATCAGGAGTCTGTTCTTCATACTTCGCTTAAATGATCTAAGATGATTTGGCAGATCCTGGATCTTTTGATCTTGATAACTGATCTCTGGCTAATTTGGTTCTTCAAACAAGTTCGCGAATCGGATTAAAATGTCTGGATAAACTGATCTGAGATCGCACCATGTGTTGTAAAGGACCGATCTATCGATCCTCGAAATCATGACCAGCAGTGCAACGATTGGCTGACGGCACAGCAGCGTAATGACATCATCTGATTAATATTCAATTATCCATGTGAGCAAAATTACATCACATGAGCAGTAAACGGTTTGTTAAATATGACACGTAATAACTTTCCACCTTTGTTGTGAGCGGCAGGCTTTACACTTTCATGTGTCAAGAGTATTCATCATGTATTTCCTTGCATATCAATGTATTTAGTTCTACATTGAAAGAAGATTTTCTTTATTATAATATAGGCCTACTTATGTTTTTTTTATCGTTGTAAGGAACTGTTTTAATTAATTTTGCATCAAAAAAGCATTTTGATATCGGTAAAGATGTCAATCACTGGCATATTAGTGATTAAAACAAGTGCATGACTGCATAAATTATTATCCTTTTTTTAAAAAGTTTAATATTGTGCCGTACTCATTTGTATCTAAAAAGTTCATATCTATAATATTTTTCTTTGAACCACCAGGCGGCATTCTTTAACTTATTTCGGAGTGCAGTTTGCATAAATTTTATTAATATATGTATTTTTTCCTTTATATATATATATATATGTAAATATATATATATTGTAAAAAAAACTATATATATATATATATATATATATATATAGTTAAAAATATATGCTACTATAAAAATATATACTATTTTCCCAAGTGTATATAACTACTGTAAGAAATTATCAGCATTCGGTACATATTTTCAGTATTATCTTTGCTTGAACTGACCCTATCTAATCCTGTTTGAAATGAACCTGCTTCTACACAGGTTTGAGCTCTGAGAACTGTTACTATAACAACAACCCTTGGATGAATTTTGAAGAACGAAACGATTTTGGATCATGTCAAATCGTCAATATTCAAATCCAGCCAGTTGATTAATCCACGTACGAAAAACGGACCCCTGGTTAAAAAAAAAAAAAAAAAAACATGTAATGACATGATGTATCCATTAGGTTCTAGTATTACTTTCTCTACAAAGCTGCTTGTGAATTCTTTAGTTGTTTAGACATTGCTAAGGAATTGTGGACTTTGAATATACATTTAGACAATCTGAAAGACTTCTTTTTGTGCAAGTGTTTGCAAGTAGTGTCGAGTTGCTTCATTTTAGGTTCATTTCTGTTGTCAAAGAATTAGACATTTCTGCTACAACTGTGCTGAAATCCTAATGAAAGTCATGTTAATAACATTAAAAACTTAATCATCTTTCTCTCTAATGTTTAG
Seq C2 exon
GCTATTCTGGCTGGAGATTTCATTCTGTCAGCGGCGTCCATGGCATTGGCTCGCATTGGGAACACTACAGTGGTTTCTGTGCTGTCACAAGTTATAGAAGACCTCGTGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017910:ENSDART00000040865:5
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(18.0=100)
A:
NA
C2:
PF0034812=polyprenyl_synt=FE(14.2=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:
GGTTTTGCTACCGGCGCAG
R:
CTCGCACGAGGTCTTCTATAACT
Band lengths:
254-2233
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]