HsaINT0122152 @ hg19
Intron Retention
Gene
ENSG00000132915 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:8785]
Coordinates
chr5:149247288-149247721:-
Coord C1 exon
chr5:149247658-149247721
Coord A exon
chr5:149247363-149247657
Coord C2 exon
chr5:149247288-149247362
Length
295 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TGAGGGTCTGTCTGTTGCAGGTA
3' ss Score
10.06
Exon sequences
Seq C1 exon
GGCCATGATGATGACCGCCTGTGATCTCTCAGCCATCACCAAACCCTGGGAGGTGCAGAGCCAG
Seq A exon
GTATGAACTCCTGCTGACCCAAGAGGAGGGGCATCCCAGTACTGGGGGCATCAGGTCATGAGGCTTGGACTCTCTCAGCCCAGCTCCAGAACCAGCTCACCTGTGTCCCATCCTCCTCTACCAAGACATGGGAATCATTTTACGTCTCTCCAGTGATGACAGCAAAAGTGAGGGTGGCAGGGCAGGGATGGGTTTATCCTTTTTGTTGATTTGGAATTGCAAGTGGGGTGGGAGCAGGGGTAGGGGATTGGGCTGGGGCTCTGACTCTGCGTGTGTGAGGGTCTGTCTGTTGCAG
Seq C2 exon
GTAGCTCTGCTGGTGGCTGCTGAATTCTGGGAACAAGGTGACCTGGAGCGCACGGTGCTGCAACAGAATCCCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132915-PDE6A:NM_000440:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(8.4=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(9.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGATGATGACCGCCTGTG
R:
ATGGGATTCTGTTGCAGCACC
Band lengths:
136-431
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)