HsaINT0126159 @ hg19
Intron Retention
Gene
ENSG00000160447 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:17999]
Coordinates
chr9:131476325-131476644:+
Coord C1 exon
chr9:131476325-131476400
Coord A exon
chr9:131476401-131476475
Coord C2 exon
chr9:131476476-131476644
Length
75 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGG
5' ss Score
4.48
3' ss Seq
AGCTCCCCCTTTTCTCCCAGGCC
3' ss Score
8.57
Exon sequences
Seq C1 exon
GTGACCTTCTGCGATCCTGTCATTGAGAGGCGGCCCCGGCTGCAGAGGCAGGAACGCATCTTCTCTAAACGCAGAG
Seq A exon
GTGTGGAGGGAATGGGGGCTATGTGTGAGGGAGCAGGGCTGGGGTCCCGGGACTAAGCTCCCCCTTTTCTCCCAG
Seq C2 exon
GCCAGGACTTCCTGAGGGCTTCGCAGATGAACCTCGGCATGGCGGCCTGGGGGCGCCTCGTCATGAACCTGCTGCCCCCCTGCAGCTCCCCGAGCACAATCAGCCCCCCTAAAGGATGCCCTCGGACCCCAACAACACTGCGAGAGGCCTCTGACCCTGCCACTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160447-PKN3:NM_013355:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.509
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GAGGCAGGAACGCATCTTCTC
R:
CAGTGTTGTTGGGGTCCGAG
Band lengths:
172-247
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)