HsaINT0126142 @ hg19
Intron Retention
Gene
ENSG00000065243 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:9406]
Coordinates
chr1:89273212-89273458:+
Coord C1 exon
chr1:89273212-89273287
Coord A exon
chr1:89273288-89273366
Coord C2 exon
chr1:89273367-89273458
Length
79 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATC
5' ss Score
7.46
3' ss Seq
TTATTTTAATTTTATTTCAGGTG
3' ss Score
10.07
Exon sequences
Seq C1 exon
ATCTCAGCAAAGGTTTCAGTTTAATCTACAAGATTTCAGGTGTTGTGCTGTCTTGGGAAGAGGACATTTTGGAAAG
Seq A exon
GTAATCTTTTTGGAATTTTTTGGAATATCTACAACATTAATAACTCAAGTGGAAAATAATTATTTTAATTTTATTTCAG
Seq C2 exon
GTGCTTTTAGCTGAATATAAAAACACAAATGAGATGTTTGCTATAAAAGCCTTAAAGAAAGGAGATATTGTGGCTCGAGATGAAGTAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000065243-PKN2:NM_006256:14
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=PU(5.0=50.0)
A:
NA
C2:
PF0006920=Pkinase=FE(11.5=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:
ATCTCAGCAAAGGTTTCAGTTTAA
R:
TGTCTACTTCATCTCGAGCCACA
Band lengths:
167-246
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)