HsaINT0122173 @ hg19
Intron Retention
Gene
ENSG00000133256 | PDE6B
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:HGNC Symbol;Acc:8786]
Coordinates
chr4:658670-659118:+
Coord C1 exon
chr4:658670-658733
Coord A exon
chr4:658734-659043
Coord C2 exon
chr4:659044-659118
Length
310 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
3' ss Seq
CTGCCTTCCTGTGCCTCCAGGTC
3' ss Score
11.96
Exon sequences
Seq C1 exon
GGCCATGATGATGACAGCCTGCGACCTGTCTGCCATCACCAAGCCCTGGGAAGTCCAGAGCAAG
Seq A exon
GTTAGAACAGAGGGCCCTCCAGACCCAGAGTCAGTGCCTCTCAGCACATGGGACTGCCGGGCGGGCGGGAGCCTCGGATGGCAACGGACCATTGTTTGCAAGGAGCTCTGAGGGCCACCTCGGGGCCAGGCCAGGGCGGCAAGGATGGGGGTACTGCAGTGTGTCTACATGGCTCAACCGGAGCCCTGTGTGGTGGGGACCCCGGGGGTCTGGGGCGGAGAAGACCGAGGCTCGGAGCCTCACGGGGCGGGCCCGGGCCCTTCCGCGTGGGCTCAGAGCTCCACAGACAGCTGCCTTCCTGTGCCTCCAG
Seq C2 exon
GTCGCACTTCTCGTGGCTGCTGAGTTCTGGGAGCAAGGTGACTTGGAAAGGACAGTCTTGGATCAGCAGCCCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000133256-PDE6B:NM_001145291:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.032
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(8.4=100),PF0771711=OB_NTP_bind=PD(10.0=63.6)
A:
NA
C2:
PF0023314=PDEase_I=FE(29.4=100)
Main Inclusion Isoform:
NA
Other Inclusion 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)