HsaINT0122153 @ hg19
Intron Retention
Gene
ENSG00000132915 | PDE6A
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:HGNC Symbol;Acc:8785]
Coordinates
chr5:149245733-149247362:-
Coord C1 exon
chr5:149247288-149247362
Coord A exon
chr5:149245817-149247287
Coord C2 exon
chr5:149245733-149245816
Length
1471 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
CTCTTTCTCCCCCATGACAGCCC
3' ss Score
8.31
Exon sequences
Seq C1 exon
GTAGCTCTGCTGGTGGCTGCTGAATTCTGGGAACAAGGTGACCTGGAGCGCACGGTGCTGCAACAGAATCCCATT
Seq A exon
GTGAGTAGACAGGGGATGTCAGCCTGATGTTAGGTGTGTGTGCTCCATCCTGACCTAGATATGACCTCGCCATGATGGAGAGATGTGTGACTTTACCATAAAGATGACCTTTTCCTAATGCAGTGGTTCTAAAAATGTGGTCTCCAGGCCACTGTCAACCTCATTACTTGAGAACATGTTAGGTATGTATATTCACAAGCCTCACCCTAGGTCTACCCAACCAGAAGCTCTGGGGGTGGGCCCCTGCAATGAATGCTCTAACTAGTAAGCCCTCCTAAATTTTGGGAAATGTGTCCTTAGCTCACTCAACCCTAGAGGTTGGCAAGTGGACTCCAACACTTAGATTGCCCTTTCAATTTCAAAGGTCTAGAAGTCCATCCACCTCCCCTGACCCTAATCTAACAGCACAGAGTGAGCAAGTTGTGCACCTGTCAACATTGAAAGTTAACTTGGCTGAGACAGTCAGCCAGCTTCCCATGGAGATGCGCAGTTGGGGAGATCGGAAGAGCAGCCCGAAGTTTCCCTGAAGTCCCTGAAGGCAAAGCTGGGAAGTAAAGCAGGGTTTGGAAAGGATGGGTAAAAGAGAGAGACATTGTGGGGACAAACCGTTGACACCTGGATAGGCTAAACCTGTGAGAGTGTGCTAAGGATGCAGAGGTCACCACGGCAGGCTTAGGCAGGAGCCGAGAGAGAGTAGAAGGCTGGGAGGAGCAGGTCCTGTCATGAAGAAACACGTGAAGGGCCCCATGGGCTTTGTCGTTCTCACTCTCTCTTTGTAATATTTTCAAATATATTGAGAATAGTCAGTGAACTCTAGTGCCCATCAGCTACAGCCAACAATTAGCAGCAGTCTGCCATTCTTGTTTTATCAATTCCTTCCAGTGCATTTTTTTGCTTTTGGTTGCAGTATTTTAAAGTAAATCTCAGCCACTATAATCTCTTCCATAAATACTTTAGTACGTATCTCTATGAGACAAGAGCTTCATATGGACAAAATCATAAACACAACCATAATACCATTAACACACTCACAAAAGTCATATACTTCAGTATCATCTAATCCCCAATTTCTGTTCATTTTTCTTGATTAAGAAAGAGAATTCAGTTGATTTGTTCAAATCAGGATCTAATCAAGGAGCATACTGCCTCTGGTTTTAATGTCTCTTAAGTCTCTTTTAATCTGTAGCAGGCCCTGCCATCCCTCCCACCCTCTGGCCTTTTTCTGGTATGCCATTTATTTGCTGAAGACAGTGTGTCTTTTTTTTTGTGCAGTTTCCCACATTCTGGATTTGGTTGGTTACACCCTCATGGTGTTCTTTAACATGTTTCTCTATTCTCCTATTTCCTGCAAAATGCTCATCAGGTCTGGAAACATGATGAGTTTACAGTTTGATTTTAGTAAGAATGCTTCATAGATAGGGTAGGTTTCTCTTACTGTCCAGTGCAATTAACTCTTTCTCCCCCATGACAG
Seq C2 exon
CCCATGATGGACAGAAACAAAGCAGATGAACTCCCTAAGCTTCAAGTCGGCTTCATTGACTTTGTTTGCACCTTCGTCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132915-PDE6A:NM_000440:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.214
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(9.6=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(10.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)