HsaINT0126116 @ hg38
Intron Retention
Gene
ENSG00000123143 | PKN1
Description
protein kinase N1 [Source:HGNC Symbol;Acc:HGNC:9405]
Coordinates
chr19:14463667-14463969:+
Coord C1 exon
chr19:14463667-14463742
Coord A exon
chr19:14463743-14463827
Coord C2 exon
chr19:14463828-14463969
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:ENST00000242783:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.450
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
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