HsaINT0126169 @ hg19
Intron Retention
Gene
ENSG00000160447 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:17999]
Coordinates
chr9:131467582-131468158:+
Coord C1 exon
chr9:131467582-131467822
Coord A exon
chr9:131467823-131468012
Coord C2 exon
chr9:131468013-131468158
Length
190 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTCGATACCCCCGTGCACAGAGC
3' ss Score
4.22
Exon sequences
Seq C1 exon
CCTGGGCCGAGCCAGTGGCCCCCAGAGGATGAGAAGGAGGTGATCCGCCGGGCCATCCAGAAAGAGCTGAAGATCAAGGAGGGGGTGGAGAACCTGCGGCGCGTGGCCACAGACCGCCGCCACTTGGGCCATGTGCAGCAGCTGCTGCGGTCCTCCAACCGCCGCCTGGAGCAGCTGCATGGCGAGCTGCGGGAGCTGCACGCCCGAATCCTGCTGCCCGGCCCTGGGCCTGGCCCAGCTG
Seq A exon
GTGAGTGAGGAGCTGAGACCCCCTCAGGACAGAAGGCTCTAGGCCCATCTGGCCCCTGGCCTTGGCCCTGGCCACTGTGGCGAGACCACCTCATTTCCTGCCTATAGATCAGTAGGGGAAGGAGGAAAGGCCACAGTGGGGGTCTCGGCTCTGGGTGAGGGACTCCTGTGCTCGATACCCCCGTGCACAG
Seq C2 exon
AGCCTGTGGCCTCAGGACCCCGGCCGTGGGCAGAGCAGCTCAGGGCTCGGCACCTAGAGGCTCTCCGGAGGCAGCTGCATGTGGAGCTGAAGGTGAAGCAGGGGGCTGAGAACATGACCCACACGTGCGCCAGTGGCACCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160447-PKN3:NM_013355:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.753 A=NA C2=0.714
Domain overlap (PFAM):
C1:
PF0218511=HR1=WD(100=82.7)
A:
NA
C2:
PF0218511=HR1=PU(43.8=65.3)
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:
AAGATCAAGGAGGGGGTGGAG
R:
CTCCGGAGAGCCTCTAGGTG
Band lengths:
242-432
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)