HsaINT0122174 @ hg19
Intron Retention
Gene
ENSG00000133256 | PDE6B
Description
phosphodiesterase 6B, cGMP-specific, rod, beta [Source:HGNC Symbol;Acc:8786]
Coordinates
chr4:659044-660403:+
Coord C1 exon
chr4:659044-659118
Coord A exon
chr4:659119-660319
Coord C2 exon
chr4:660320-660403
Length
1201 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
CCCTCTGTTCCTCCCACCAGCCT
3' ss Score
9.61
Exon sequences
Seq C1 exon
GTCGCACTTCTCGTGGCTGCTGAGTTCTGGGAGCAAGGTGACTTGGAAAGGACAGTCTTGGATCAGCAGCCCATT
Seq A exon
GTGAGTGCTGCTTCTGGAACCTTCCACTCCTGAAACGGGTGTTAGAGACCCCTCTTGGTCCTCAGGAGCCTCAGGTCCTGGCTTGGTCTCAGGCAGGGGGTTCTGAGGTCGTGGGGTCCTTATCTCACTTTGTGGGATCATGTGACATGCGTGTGGGTGGCTCGGACCTGGGTACAGCTGTGGCTTGGGTGATGCTTATGCAGAGGTGACGTCGTTGGCACTGGAGGAACCAGGGCCACCCGCTCATCACCAGGAGCCTCTGGGTCCAGGCAGCTCTGCAGGTGAACCCCAGCAGGGCCGCGAGCCATGCACCAAGAAAGCCCTGGGGAGGGTGCTGGGGCAGAGAACGCATGGGGGGCGTCCCGGGCCCACACAGTGGTATGATGGACAATGCCAGGGTCCTCAGGTCAGCAGCGGGGTCTGGATACCTCCTGGCAGCAGGAGAGGTGCCAGCAAATGGGAGAGTCAGGATAGGCGCCAGGAACAGGAGAGGCAGGGCTGCCCCAGCCCCACGTGGACCAGGTGGGAGCTGTGGTTTCTCACACACCCGCTCTGGTGGGCGGCGAGGGGCTCTCTGGAGCCTGCAGTGGAGAGGGCTTAGGCCAGGTGCAGCCTCGGCAGGAAAGGGGGCATTGGTTGGTCAGCAAAGCCCCACAGGGGAAGGACAGGCAGCAGGTCCATCCCCCGCGCCCGGCCTCTAGAGTCCTGCATGGTTCACCCTCCACCAGGACGCTGTGAGGGGACGGACAGCCCAGGGCACTCGGGGTCTGACACTAGAAACAGCTCCAGAGCACGTCTGTGTCTGCCCCAGGCGAGTGCACAGCGAGGTCCTGGTCAGCCGAGTGTCTGGGCAGTGCAGCCCAGCCCGGCTCAGCACTGTGTACAGCCCATCCCCCTCCCCGCCTCTCCCCAGCTGCAGTAAGGGTCCCCAGAGCCAAGAGGGGGCTGCCCTCAGGGGACCACGGGCTGGAGCCAACAGCAGCTGTGGGAAGAAGCTGCCCACAGTTCCTAGGAGCTGTGGAGCCGCTGGCCAAGGGAGAGGGTGTCAGCTTCCCCTCCCGAGAGCCAGTTTCTGTCAGGCAGGCTCGTCCCAGGCTGTGTCTCCATGAGCACATCTGAGTGAGGGGGTCGGGGGGCTGGGCGGGGCCCCAGGAGCTGCCTCCCTGGTCACTGTTCTCCCGCCCTCTGTTCCTCCCACCAG
Seq C2 exon
CCTATGATGGACCGGAACAAGGCGGCCGAGCTCCCCAAGCTGCAAGTGGGCTTCATCGACTTCGTGTGCACATTCGTGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000133256-PDE6B:NM_001145291:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(29.4=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(10.8=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)