HsaINT0126124 @ hg38
Intron Retention
Gene
ENSG00000123143 | PKN1
Description
protein kinase N1 [Source:HGNC Symbol;Acc:HGNC:9405]
Coordinates
chr19:14469912-14470305:+
Coord C1 exon
chr19:14469912-14469988
Coord A exon
chr19:14469989-14470162
Coord C2 exon
chr19:14470163-14470305
Length
174 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
CATGGCCTTGCTGTCCCCAGGGA
3' ss Score
10.87
Exon sequences
Seq C1 exon
GGACCTGAAGTTGGACAATTTGCTCCTGGACACCGAGGGCTACGTCAAGATCGCAGACTTTGGCCTCTGCAAGGAGG
Seq A exon
GTGAGGGGCTGGCCTCTGGATTAGACAAAGGAGGGGGAAGGAATGGGGTCCCTAACCCTATTCGGGGTGCCCCCCACCCTGACCCTGGGACAGGGCTGGCTGTGTGGACAACCCCACATTGGGCTGAGTGACTCCTCTGGCCCCCATAACCTCACATGGCCTTGCTGTCCCCAG
Seq C2 exon
GGATGGGCTATGGGGACCGGACCAGCACATTCTGTGGGACCCCGGAGTTCCTGGCCCCTGAGGTGCTGACGGACACGTCGTACACGCGAGCTGTGGACTGGTGGGGACTGGGTGTGCTGCTCTACGAGATGCTGGTTGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123143:ENST00000242783:18
Average complexity
IR
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(10.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.1=100)
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:
GGACCTGAAGTTGGACAATTTGC
R:
CGCCAACCAGCATCTCGTAG
Band lengths:
218-392
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