DreINT0111803 @ danRer10
Intron Retention
Gene
ENSDARG00000000380 | pde6a
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:ZFIN;Acc:ZDB-GENE-030616-42]
Coordinates
chr14:24719350-24719710:-
Coord C1 exon
chr14:24719623-24719710
Coord A exon
chr14:24719451-24719622
Coord C2 exon
chr14:24719350-24719450
Length
172 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
GAAATAATTTGTTTTCCAAGGCC
3' ss Score
4.83
Exon sequences
Seq C1 exon
ATCTGGGAATCCACTAGCAAAGCTGCATGGTTCCTCCATTCTCGAGAGGCACCATCTGGAATTTGGAAAAACTCTGCTTAGAGACGAG
Seq A exon
GTAATGCCAAAATTAATTACATTTTAGGGATTTTTCAAACGGTGTCAGCTATGATTATCTTTTTGAACTCTGCAGACTATTGAGAATGTGCATCTAGTTGATAAGCTCCATAAATAACTGCCTCCTCACTCACAGCCAGCATTTTCCTCACGGAAATAATTTGTTTTCCAAG
Seq C2 exon
GCCTTAAATATCTACCAGAATCTGAACAGAAGACAGCACGAAACCGTCATCCATTTGATGGACATTGCTATCATCGCAACAGACTTGGCCTTGTATTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000380:ENSDART00000000392:15
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:
PF0023314=PDEase_I=FE(11.6=100),PF0771711=OB_NTP_bind=FE(26.4=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(13.3=100),PF0771711=OB_NTP_bind=FE(30.0=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:
TCTGGGAATCCACTAGCAAAGC
R:
GAAATACAAGGCCAAGTCTGTTGC
Band lengths:
186-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]