RnoINT0108894 @ rn6
Intron Retention
Gene
ENSRNOG00000017816 | Pde6a
Description
phosphodiesterase 6A [Source:RGD Symbol;Acc:1306835]
Coordinates
chr18:56585424-56585767:+
Coord C1 exon
chr18:56585424-56585489
Coord A exon
chr18:56585490-56585620
Coord C2 exon
chr18:56585621-56585767
Length
131 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
TGGACTTCACTCCGGTGCAGCAA
3' ss Score
4.77
Exon sequences
Seq C1 exon
AAAACCAGAGAGGTGTATGGCAAAGAGCCGTGGGAATGCGAGGAGGAGGAGCTGGCTGAGATCCTG
Seq A exon
GTAAGCAGCCTGACCCTGGGGCAGTAGGGCTCAAGCATCCCTTCACCCTCCTTGGCTCTCCTTGGCAGACCTGGGGGAGGGGTGCAGGAGCACCTCATGCTCCTTAATGACTGGACTTCACTCCGGTGCAG
Seq C2 exon
CAAGAAGAACTTCCAGATGCCGAGAAATATGAAATCAACAAGTTTCACTTCAGTGACCTGCCCCTTACGGAACTGGAGCTGGTGAAATGCGGCATACAGATGTACTATGAGCTCAGAGTGGTGGACAAGTTCCACATCCCGCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017816:ENSRNOT00000024171:11
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:
NO
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:
AGAGAGGTGTATGGCAAAGAGC
R:
TCTTGCGGGATGTGGAACTTG
Band lengths:
206-337
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]