HsaINT0126160 @ hg38
Intron Retention
Gene
ENSG00000160447 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:HGNC:17999]
Coordinates
chr9:128714197-128714664:+
Coord C1 exon
chr9:128714197-128714365
Coord A exon
chr9:128714366-128714561
Coord C2 exon
chr9:128714562-128714664
Length
196 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTCTACTTTCTCCCTACAGTAA
3' ss Score
10.38
Exon sequences
Seq C1 exon
GCCAGGACTTCCTGAGGGCTTCGCAGATGAACCTCGGCATGGCGGCCTGGGGGCGCCTCGTCATGAACCTGCTGCCCCCCTGCAGCTCCCCGAGCACAATCAGCCCCCCTAAAGGATGCCCTCGGACCCCAACAACACTGCGAGAGGCCTCTGACCCTGCCACTCCCAG
Seq A exon
GTGAGGAGCTCCCTTGCCCTAGACTGCATGCTCCTCTGTGGCGGCTTCCTGACTCCAGATCCAGGCGGTATCTGTCTGTCTGTCTGCATTGCTCAGCCCGCTAACCCTCTGTCCATCTCACTTTGGGTTGGTGTGTCCATCCTGCCAGCTCTTGCGTCTGCCTGTGCTGGGCACTGTGTCTACTTTCTCCCTACAG
Seq C2 exon
TAATTTCCTGCCCAAGAAGACCCCCTTGGGTGAAGAGATGACACCCCCACCCAAGCCCCCACGCCTCTACCTCCCCCAGGAGCCAACATCCGAGGAGACTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160447:ENST00000291906:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.509 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGGGCTTCGCAGATGAAC
R:
AGTCTCCTCGGATGTTGGCTC
Band lengths:
258-454
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