HsaINT0122196 @ hg19
Intron Retention
Gene
ENSG00000095464 | PDE6C
Description
phosphodiesterase 6C, cGMP-specific, cone, alpha prime [Source:HGNC Symbol;Acc:8787]
Coordinates
chr10:95421816-95422400:+
Coord C1 exon
chr10:95421816-95421890
Coord A exon
chr10:95421891-95422316
Coord C2 exon
chr10:95422317-95422400
Length
426 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGA
5' ss Score
4.37
3' ss Seq
GGATTTATTTCTCTTTCTAGCCT
3' ss Score
7.3
Exon sequences
Seq C1 exon
GTAGCACTTATGGTTGCAAATGAATTTTGGGAACAAGGAGATCTGGAGAGAACAGTGTTGCAGCAACAACCCATT
Seq A exon
GTAAGACCTTGACATAAAAATGTATTACTTATTAAAAGTTATCAGGACAGGCCGGGCGCGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCTGAGGTGGGCAGATCACGAGGTCAAAAGATCGAGACCATCCTGACCAACATGGTGTAACCCCGTTTCTACTAAAAATACAAAAATTAGCTGGTCATGGTGGTGCATGCCTGTAGTCCCAGCCACTCGGGAGGCTGAGACAGGAGAATCACTTAAACTCAGAAGGCGAAGGCTGCAGTGAGCCGAGATTGTGGCACTGCACCCAGACTGGAGACAGAGTGAGACTCTGCCTCAAAAAAAAAAAAAAAAAAAAAAAAGTTATCAGGACAAATCAGTCTGTTTTGTTCATACATCTTAGAAACCTGTCTTAAAGGATTTATTTCTCTTTCTAG
Seq C2 exon
CCTATGATGGACAGAAACAAAAGAGATGAATTACCTAAACTTCAAGTTGGATTTATTGATTTTGTTTGTACTTTTGTATATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095464-PDE6C:NM_006204:19
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
Zebrafish
(danRer10)
No conservation detected
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
- Genotype-Tissue Expression Project (GTEx)
- 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)