HsaINT0122150 @ hg19
Intron Retention
Gene
ENSG00000132915 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:8785]
Coordinates
chr5:149262992-149264142:-
Coord C1 exon
chr5:149264042-149264142
Coord A exon
chr5:149263100-149264041
Coord C2 exon
chr5:149262992-149263099
Length
942 bp
Sequences
Splice sites
5' ss Seq
CAAGTTGGT
5' ss Score
2.11
3' ss Seq
TAGACTGATATGTTTTGTAGGAA
3' ss Score
5.09
Exon sequences
Seq C1 exon
AGCCTGAATATCTTTCAAAACCTCAATCGTCGACAGCATGAGCATGCCATCCACATGATGGACATTGCAATCATTGCCACAGACCTCGCCCTGTATTTCAA
Seq A exon
GTTGGTATATCTTCTCATTCTAATAGTAAAAGCAACAATGATTATATGTATGCATATATATATATACACACATATATATACATATATACACATATATATACACACATATATACATATATACACATATATACACACATATATATACATATATACACATATATACATATATACACATATATACATATATACACATATATACACATATATACATATATATACACATATATATACACATATATCTACACATATATATGTGTGTGTGTATATATATATATATATTTTTTTTTTTTCTTTTTTGAGACAGGATCTCACTCTGTTGCCCAGGCTAGAGTGCGGTGGCACCATCACAGCTCACTGCTTCCTGGGCTCAAGGGATCCTCCCACCTCAGCCTCCTGAGTGGCTGGGACTACAGGAACACCACCACTCCTGGATAATTTTTTAATTTGCTGTAAAGATGGGTTCTCACTATGTTACCCAGGCTGATCTAAAACTCCTGGTCTCAAGCCATCCTTCTGCCTCAGCCTCCCAAAGTATTGGGATTACAGGCATGAGCCACTGCACCCAGCAACAATATAATAACAATAATAATAACAAACATCATAGTTCCAATTAATTTAGCATATACTATGTGTCAGGCACAACACGTGTGTTATGGACACATTGATTCTTGCTACAAGCCTGTGAGTTAGATATCATTACCCCCGCTGTACAGATGGGAACACTGAGATTCAGGACAAGAGATTTGCTAAGAGTAGATAACAAATCAGTGGCAGAGACTTAGGTTAAACCTAGGTCTTCACTCCTGGGCCTTGGCTCTTTCAACCTTGTTTTGTGAATTTTGTTGATTTAATAAGGCTCCATCTGAATCAGCCAATGTTAGCAGCTCAGGTGTTGCCTTATTCTAAGACTTGCTCCCTTTACTAGACTGATATGTTTTGTAG
Seq C2 exon
GAAGAGGACGATGTTCCAAAAGATCGTGGATCAGTCTAAGACATATGAGAGTGAACAGGAGTGGACACAGTACATGATGCTGGAGCAGACACGGAAGGAAATCGTTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132915-PDE6A:NM_000440:16
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=0.000
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(13.3=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(14.5=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:
AGCCTGAATATCTTTCAAAACCTCA
R:
ACGATTTCCTTCCGTGTCTGC
Band lengths:
206-1148
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)