HsaINT0126174 @ hg19
Intron Retention
Gene
ENSG00000160447 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:17999]
Coordinates
chr9:131469175-131469684:+
Coord C1 exon
chr9:131469175-131469302
Coord A exon
chr9:131469303-131469500
Coord C2 exon
chr9:131469501-131469684
Length
198 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGG
5' ss Score
4.94
3' ss Seq
CTACGTTGTCCCCTCTGCAGGCC
3' ss Score
9.72
Exon sequences
Seq C1 exon
GGCCTGAGCTGCTGGCGGAGGAGCTACAGCATCGACTGCACGTTGAGGCAGCTGTGGCTGAGGGCGCCAAGAACGTGGTGAAACTGCTTAGTAGCCGGAGAACACAGGACCGCAAGGCACTGGCTGAG
Seq A exon
GTCAGGCCCCAGCCCTGGCCCTCTCCTAAGGCTGGCTTGTTCCCATACCACCCTCAGCAGGGGTGTGAAGGGAGGGTGGCCGTGTAAAAGCAGGACTTCTCTGTTGAGACTTCATGCGGAAGGTGGCTCCGGGTGACCTGGGCTGCTGCCCCCTGCCATATACCCCACGAACCTGGCTCTACGTTGTCCCCTCTGCAG
Seq C2 exon
GCCCAGGCCCAGCTACAGGAGTCCTCTCAGAAACTGGACCTCCTGCGCCTGGCCTTGGAGCAGCTGCTGGAGCAACTGCCTCCTGCCCACCCTTTGCGCAGCAGAGTGACCCGAGAGTTGCGGGCTGCGGTGCCTGGATACCCCCAGCCTTCAGGGACACCTGTGAAGCCCACCGCCCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160447-PKN3:NM_013355:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.532
Domain overlap (PFAM):
C1:
PF0218511=HR1=PD(2.7=4.7),PF0218511=HR1=PU(53.4=90.7),PF154561=Uds1=PU(56.5=90.7),PF118963=DUF3416=PU(46.5=93.0)
A:
NA
C2:
PF0218511=HR1=PD(43.8=51.6),PF154561=Uds1=PD(40.6=45.2),PF118963=DUF3416=PD(51.2=71.0)
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:
CATCGACTGCACGTTGAGGC
R:
CTGAAGGCTGGGGGTATCCA
Band lengths:
253-451
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)