DreINT0111813 @ danRer10
Intron Retention
Gene
ENSDARG00000000380 | pde6a
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:ZFIN;Acc:ZDB-GENE-030616-42]
Coordinates
chr14:24731163-24731444:-
Coord C1 exon
chr14:24731370-24731444
Coord A exon
chr14:24731228-24731369
Coord C2 exon
chr14:24731163-24731227
Length
142 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
CAATATTATTTCTTCTTCAGGAA
3' ss Score
8.49
Exon sequences
Seq C1 exon
GAGTTCTTTGACCTTTGGCCCGTACTGATGGGAGAAGTACCTCCATATAGCGGACCAAAGACCCCTGATGGCAGA
Seq A exon
GTGAGTGATATGCAGGATAAATAGGAAACATAATTGCTAATGTAATTGTTAATCATGTCAGAGAAACAGAACTGCTCTGAATTAATCTTCATACAACTTTTGCATACTCTGTGTTTTACTTACAATATTATTTCTTCTTCAG
Seq C2 exon
GAAGTGATATTCTACAAAGTGATTGATTACATATTGCATGGAAAGGAGGACATCAAAGTCATTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000380:ENSDART00000000392:5
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:
PF0159021=GAF=FE(13.5=100)
A:
NA
C2:
PF0159021=GAF=FE(11.8=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:
AGTTCTTTGACCTTTGGCCCG
R:
GGAATGACTTTGATGTCCTCCT
Band lengths:
139-281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]