DreINT0111815 @ danRer10
Intron Retention
Gene
ENSDARG00000000380 | pde6a
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:ZFIN;Acc:ZDB-GENE-030616-42]
Coordinates
chr14:24729676-24730013:-
Coord C1 exon
chr14:24729947-24730013
Coord A exon
chr14:24729724-24729946
Coord C2 exon
chr14:24729676-24729723
Length
223 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CTTTCCATTCACTCCTATAGATC
3' ss Score
9.5
Exon sequences
Seq C1 exon
TAACCCTCCTGCTGACCACTGGGCTTTAGTAAGTGGGCTTCCCACCTACGTTGCAGAGAATGGCCTG
Seq A exon
GTAAGAGTCTAGACCTCCATCCTCCTCCACTGACGCCACAGTAGTCAGACGAGTTGAGAGCTATTATGGTTTATATTGCTCCTGTCATGTGCACAGTGAGGGGGAATAGAATGTGCTCCCACACTAAAATGATGGATAATTGTAATTTTGTGGGCTGTAATTAATCTACAAGCAATGCCCATTCTCAGTGAGCATGACTGCTGCTTTCCATTCACTCCTATAG
Seq C2 exon
ATCTGTAATATCATGAATGCTGCTCAAGACGAATTCTTCGAATTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000380:ENSDART00000000392:7
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(12.4=100)
A:
NA
C2:
PF0159021=GAF=FE(8.4=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]