DreINT0112203 @ danRer10
Intron Retention
Gene
ENSDARG00000017910 | pdss1
Description
prenyl (decaprenyl) diphosphate synthase, subunit 1 [Source:ZFIN;Acc:ZDB-GENE-030131-4430]
Coordinates
chr24:5991838-5992633:-
Coord C1 exon
chr24:5992507-5992633
Coord A exon
chr24:5991969-5992506
Coord C2 exon
chr24:5991838-5991968
Length
538 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TTGTGATCTTTCTGATTCAGCAG
3' ss Score
6.54
Exon sequences
Seq C1 exon
GCACAGGTGTAAATATCTGTACTCAACGCCCCGAGTCAGCTGCAGTTTACACAGTGATGCAAAGTTAAAAGATCCTTTCTCACTCGTACAAAAGGACTTGCAAAATATATATGATGACATAAAACAG
Seq A exon
GTAAACCAAGAATATTGTATGGTTTTGTTTTGCATTTTACCACCAATCATTTTTCTTGTCCACAGTTGCTTAATGAGTTATTGTATTACTTTCCATTTCTACATTAAAAACTGCACTTTTTACACAGAATTTGCATTTGAAATTATGGGTGGCACTTCCTATTTGGGAAACTTATTTATATATGTAGTAAAAAGGGAATTCTCAATTTTCATTTATTTTATATGTAGTGAAAATAATATTGTGCTTGTTATTTTATTTTACCTGTGACTAAATATATTTTAAAGCTGTTTTATTTCTTCAGATTATTATTATTTTGGTGTATTTTCTACTTTATAGCAACATTGTGAATAATATTACTCTAGAAAAATTTGTTAAATTGAGGTTTATTCATAGTCTGCTTTTTTAATGAATTGAATTAACATTTAACCCTTTTTGTACAGTATTCGGGAGTTTATTACTGAATTGAATGGAAGCTAAATCTATAATTTGGTGGCTAAAACAAAGTGTTGTAACAGACCTTGTGATCTTTCTGATTCAG
Seq C2 exon
CAGCTGCTGGTGTCTAAAGCAGAGCTGAAAGCGCTGTGTGATTATTACTTTGACGGGAAGGGAAAAGCTTTTCGACCAATGATTGTGATCTTAATGGCTCGAGCTTGTAATGTCCACAGCAATAAAGAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017910:ENSDART00000040865:3
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:
NO
A:
NA
C2:
PF0034812=polyprenyl_synt=PU(13.4=79.5)
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:
AGGTGTAAATATCTGTACTCAACGCC
R:
CCCTCTTTATTGCTGTGGACA
Band lengths:
254-792
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]