HsaINT0122146 @ hg19
Intron Retention
Gene
ENSG00000132915 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:8785]
Coordinates
chr5:149274746-149276065:-
Coord C1 exon
chr5:149275919-149276065
Coord A exon
chr5:149274854-149275918
Coord C2 exon
chr5:149274746-149274853
Length
1065 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TGATGTGCATGTGTTCACAGGCC
3' ss Score
8.42
Exon sequences
Seq C1 exon
CAAGCGGAGCTGCCAGATGCAGATAAATACGAAATTAATAAATTTCACTTCAGTGACTTACCCCTAACAGAACTGGAGCTGGTAAAATGTGGAATACAGATGTATTATGAGCTCAAAGTGGTGGATAAATTTCACATTCCACAAGAG
Seq A exon
GTGAGGTCAAAACAAATATATATGATTTCCCTTTTTAATTTTCTTTCTTGCTTGCTTTAAAAAAAAGACTCAATCTGTAAACTACCTTAAAAAGAGTTTACTCTCAGTATTTAGGATTTAAAGAATTAGTCATGTTGCACAGATGAGTCATTTATAAGAAAAGAGACACGCTGTTCCTCTGTGTCCTGTGAAGTGTGATGTTTTGGGTGCGTTGGTTTCTTGCAGTGGGTTCTGAGGTACTAAGCCCTGAAGGCTGGGAATAGATATGCTGCAAAAAATGGGTCCTATAGTTAAATGAGGGCAGAAAATGTGGGCTAAACCCATTTAAACAGGGCTCATTCCCTGCAGGATTCCTTACTAAGGTTTGCTGTGAGTCTAGGGTCATGGGGGACGGCAGAGAAGGTATGTGTGGGAGGCAGTGGGATATGATATGCAGAATTGCCTGAACTTGTTTGATTTTGATTAAAGCAGTGGTTCTCAAAGTGTTACCCCAGACCACATCCACACCACCTAAGAACTTATCAGAAATTCACATTCTTCTTTTTCTCTCTCTCTCTCTCCTCTTTCTCTCTCTCTCTCACACACACAGACACACACACACACACACTCCCAGCTCTGATAAATCAGAAACTGTTTTAACAAGTCCTCCAAGTGAGTCTCATGCACACGCAAGTTTGAGAACCACTGGATAAAAGAGTCCTTTTGTTTTTGTTTTTTTTTTCCCTGTAGAGCCCTTGTTAGCTTCTCCAAGGATAGTTGCTCTCCAGGGCACAGTTCGGGAATTACTGATGAAGCTCAGTCAGAGGAATGATGCATGCTCACCTCGTTTCCTAACAACAACAACAACATCTTCTTAGTATTTAGCATTTAGTATTTGCAAAGCACTTTCGCAGCATGATTGCATCTAGTACAAGCTCTCACCTCCTGGTCCAATGATGGGGTTAGAGTACCTCAAACCTCAAAAGAGAGGGCCATGGGCCATGCCTTCTTCATATTTTTGTTATTCCAACCCTCATGAGACCATTTCAGGTGTGTCCTGCCTCACTGATGTGCATGTGTTCACAG
Seq C2 exon
GCCCTGGTGCGGTTCATGTACTCCCTGAGTAAGGGCTACCGCAAGATCACCTACCACAACTGGCGGCACGGCTTCAACGTGGGGCAGACCATGTTCTCCCTGCTGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132915-PDE6A:NM_000440:12
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:
NO
A:
NA
C2:
PF0023314=PDEase_I=PU(7.2=50.0)
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:
GCCAGATGCAGATAAATACGAAA
R:
CAGCAGGGAGAACATGGTCTG
Band lengths:
241-1306
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)