HsaINT0126119 @ hg19
Intron Retention
Gene
ENSG00000123143 | PKN1
Description
protein kinase N1 [Source:HGNC Symbol;Acc:9405]
Coordinates
chr19:14578377-14578605:+
Coord C1 exon
chr19:14578377-14578453
Coord A exon
chr19:14578454-14578529
Coord C2 exon
chr19:14578530-14578605
Length
76 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACA
5' ss Score
5.49
3' ss Seq
CCAGTGGCCTCTCTCCACAGCCC
3' ss Score
9.75
Exon sequences
Seq C1 exon
AGCTCCCCCATCCAGGAATCCACTGCTCCCGAGCTGCCTTCGGAGACCCAGGAGACCCCAGGCCCCGCCCTGTGCAG
Seq A exon
GTGACACCACTCCCTGGCCCCCTGTCCACCACCCCTGCCCGCTGTCCTTGTTCTCACCAGTGGCCTCTCTCCACAG
Seq C2 exon
CCCTCTGAGGAAGTCACCTCTGACCCTCGAAGATTTCAAGTTCCTGGCGGTGCTGGGCCGGGGTCATTTTGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123143-PKN1:NM_002741:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(5.0=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCCCCATCCAGGAATCCAC
R:
CTTCCCAAAATGACCCCGGC
Band lengths:
151-227
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)