HsaINT0126116 @ hg19
Intron Retention
Gene
ENSG00000123143 | PKN1
Description
protein kinase N1 [Source:HGNC Symbol;Acc:9405]
Coordinates
chr19:14574479-14574781:+
Coord C1 exon
chr19:14574479-14574554
Coord A exon
chr19:14574555-14574639
Coord C2 exon
chr19:14574640-14574781
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CGCCTGCCCCGTCCCCCCAGGGA
3' ss Score
11.53
Exon sequences
Seq C1 exon
GTCACCTTCCGCAACCCTGTCATTGAGAGGATTCCTCGGCTCCGACGGCAGAAGAAAATTTTCTCCAAGCAGCAAG
Seq A exon
GTGAGAGGGTGCTCCAGGCTTCCTGGGGGAGAGGCCAGGGGTCCTGGGAGTGTCATGGAGGGTGACGCCTGCCCCGTCCCCCCAG
Seq C2 exon
GGAAGGCGTTCCAGCGTGCTAGGCAGATGAACATCGATGTCGCCACGTGGGTGCGGCTGCTCCGGAGGCTCATCCCCAATGCCACGGGCACAGGCACCTTTAGCCCTGGGGCTTCTCCAGGATCCGAGGCCCGGACCACGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123143-PKN1:NM_002741:10
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=0.417
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TTCCGCAACCCTGTCATTGAG
R:
CAGGGCTAAAGGTGCCTGTG
Band lengths:
178-263
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)