HsaINT0126123 @ hg19
Intron Retention
Gene
ENSG00000123143 | PKN1
Description
protein kinase N1 [Source:HGNC Symbol;Acc:9405]
Coordinates
chr19:14580564-14580800:+
Coord C1 exon
chr19:14580564-14580626
Coord A exon
chr19:14580627-14580723
Coord C2 exon
chr19:14580724-14580800
Length
97 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
ACCCCTCCAACCCCCAACAGGGA
3' ss Score
8.27
Exon sequences
Seq C1 exon
CTTTTATTCCGCCTGCGTGGTGCTGGGCCTACAGTTTCTTCACGAACACAAGATCGTCTACAG
Seq A exon
GTGTGTGCGTGTGTGCATGCATGTGCACACTGCCCGTTGTGGGGACAGGACCCAGACCCCCGCTCATCCCTCTTTCCACCCCTCCAACCCCCAACAG
Seq C2 exon
GGACCTGAAGTTGGACAATTTGCTCCTGGACACCGAGGGCTACGTCAAGATCGCAGACTTTGGCCTCTGCAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123143-PKN1:NM_002741:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(11.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(10.0=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:
CTTTTATTCCGCCTGCGTGGT
R:
CTCCTTGCAGAGGCCAAAGTC
Band lengths:
139-236
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)