DreINT0111799 @ danRer10
Intron Retention
Gene
ENSDARG00000000380 | pde6a
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:ZFIN;Acc:ZDB-GENE-030616-42]
Coordinates
chr14:24726738-24727038:-
Coord C1 exon
chr14:24726973-24727038
Coord A exon
chr14:24726885-24726972
Coord C2 exon
chr14:24726738-24726884
Length
88 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAG
5' ss Score
5.75
3' ss Seq
TGCTGTTTTTTTCTCTATAGAAT
3' ss Score
10.55
Exon sequences
Seq C1 exon
AACACACGTGAGATGTATGATAAAGAGCCTGACGAATGTGAAGAGGACGAGCTGGAAGATATTCTG
Seq A exon
GTAAAGCACACACAAACACGCGCTAATGATGTTTGGTTTATAGTCTTGTTGTTTTATTGCTGTTTTCATGCTGTTTTTTTCTCTATAG
Seq C2 exon
AATGAAGTGCTGCCAGACTCTGAAGAATCTGAGATCTTTGAGTTTCACTTCTGTGACTTTGAATTCAGTGAACTGGACCTCGTGAAGTGTGGCATCAAGATGTACTATGAGCTGGGAGTGGTAGACAAGTTCCATATTCCACGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000380:ENSDART00000000392:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
GCCTGACGAATGTGAAGAGGA
R:
ACTTGTCTACCACTCCCAGCT
Band lengths:
170-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]