HsaINT0122168 @ hg19
Intron Retention
Gene
ENSG00000133256 | PDE6B
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:HGNC Symbol;Acc:8786]
Coordinates
chr4:655923-656407:+
Coord C1 exon
chr4:655923-656030
Coord A exon
chr4:656031-656297
Coord C2 exon
chr4:656298-656407
Length
267 bp
Sequences
Splice sites
5' ss Seq
ATGGTACGT
5' ss Score
9.89
3' ss Seq
AGGTGGCCCTGTCTCTACAGACC
3' ss Score
8.24
Exon sequences
Seq C1 exon
GTCCTGGTGCGGTTCCTGTTCTCCATCAGCAAAGGGTACCGGAGAATCACCTACCACAACTGGCGCCACGGCTTCAACGTGGCCCAGACGATGTTCACGCTGCTCATG
Seq A exon
GTACGTGGCTGCCAGAATCACCAGGGTTGTGCAGGCCCTCCTGGTACCAAGGGCAGCACTCAAGCACCCCGAGGGATGAGATGGGGGTCCTCCCAGGGCAGAAGGATGGAGGAGGGCAACGCCCTCTGACACCGTGCACCGCGCACCCCAGCCCTGCGGTGGTCGGAGGTCCAACCTCCAACCCGACGCCTAGGTCATCCCAACCCCTCACCACTCCCCACCCTGCTGGAGCCAGGACCGGTGAGCAAGGTGGCCCTGTCTCTACAG
Seq C2 exon
ACCGGCAAACTGAAGAGCTACTACACGGACCTGGAGGCCTTCGCCATGGTGACAGCCGGCCTGTGCCATGACATCGACCACCGCGGCACCAACAACCTGTACCAGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000133256-PDE6B:NM_001145291:13
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=0.000
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PU(7.2=50.0)
A:
NA
C2:
PF0023314=PDEase_I=FE(14.5=100),PF0771711=OB_NTP_bind=PU(18.6=70.3)
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:
GTCCTGGTGCGGTTCCTGTT
R:
TGGTACAGGTTGTTGGTGCC
Band lengths:
212-479
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)