DreINT0111798 @ danRer10
Intron Retention
Gene
ENSDARG00000000380 | pde6a
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:ZFIN;Acc:ZDB-GENE-030616-42]
Coordinates
chr14:24726973-24727416:-
Coord C1 exon
chr14:24727273-24727416
Coord A exon
chr14:24727039-24727272
Coord C2 exon
chr14:24726973-24727038
Length
234 bp
Sequences
Splice sites
5' ss Seq
TTGGTGGGT
5' ss Score
4.3
3' ss Seq
GAAACTGTGTTTTTGTTCAGAAC
3' ss Score
6.55
Exon sequences
Seq C1 exon
TCTCTCACTCAGTTCCTGGGATGGTCAGTGCTGAATACAGACACATACGATAAGATGAACAAGCTAGAAAATCGTAAGGACATCTTTCAGGACATGGTCATGTACCACGTCAAATGCAGGAAGGATGAGATTCAGAATATCTTG
Seq A exon
GTGGGTTGACATGTTTTAATCTCTAGTGTGCACTAATTAAAATAAATTACAGTACATTGGTAATGCTGGTAATGGCAGGACATCCTATTTGTACGACATGAAGAATCCTGATCATGTGGAAGAGCAGTGCTGTCCTATATGTCTCTGTGATTGATAGCCTGATTAAAAGTGGTTGTATGAACATTGAATGAGAATCTAAGTGCATCAGCAATGGGAAACTGTGTTTTTGTTCAG
Seq C2 exon
AACACACGTGAGATGTATGATAAAGAGCCTGACGAATGTGAAGAGGACGAGCTGGAAGATATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000380:ENSDART00000000392:10
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=0.136
Domain overlap (PFAM):
C1:
PF0159021=GAF=PD(5.1=18.8)
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:
TCTCTCACTCAGTTCCTGGGA
R:
ATCTTCCAGCTCGTCCTCTTCA
Band lengths:
204-438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]