DreINT0111811 @ danRer10
Intron Retention
Gene
ENSDARG00000000380 | pde6a
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:ZFIN;Acc:ZDB-GENE-030616-42]
Coordinates
chr14:24731868-24732193:-
Coord C1 exon
chr14:24732104-24732193
Coord A exon
chr14:24732009-24732103
Coord C2 exon
chr14:24731868-24732008
Length
95 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGA
5' ss Score
5.26
3' ss Seq
TTTCCAAATCCACTTTGAAGGTA
3' ss Score
6.24
Exon sequences
Seq C1 exon
ACACTGAAGAAATATCTCAACTTTGCTAATCTTGTGCTCCGAGTGTTTCACCTGAGCTACCTGCACAACTGTGAAACCAGAAGAGGACAA
Seq A exon
GTGAGATTTCTATAAGACTGAGATTTCAAACGTGTTCACATTCACTGTCATTCCATGATCTTTTTCATGTCATTTTTTCCAAATCCACTTTGAAG
Seq C2 exon
GTATTGCTCTGGTCTGCCAGCAAAGTGTTTGAAGAGCTGACTGACATTGAGAGACAGTTCCACAAGGCTCTTTATACAGTCCGAGCTTTTCTCAACTGTGACCGCTACTCTGTTGGCCTTCTCGACATGACCAAAACTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000380:ENSDART00000000392:3
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:
PF0159021=GAF=PD(8.0=40.0)
A:
NA
C2:
PF0159021=GAF=PU(18.0=68.1)
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:
CTCCGAGTGTTTCACCTGAGC
R:
GAGAAGGCCAACAGAGTAGCG
Band lengths:
177-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]