HsaINT0126168 @ hg19
Intron Retention
Gene
ENSG00000160447 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:17999]
Coordinates
chr9:131481965-131482296:+
Coord C1 exon
chr9:131481965-131482107
Coord A exon
chr9:131482108-131482188
Coord C2 exon
chr9:131482189-131482296
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CTGAGCCCCCATCTCCACAGTGC
3' ss Score
7.58
Exon sequences
Seq C1 exon
GGATCGGCTTCGGGGACCGGACTAGCACCTTCTGTGGCACCCCGGAGTTCCTGGCTCCCGAGGTGCTGACCCAGGAGGCATACACACGGGCTGTGGACTGGTGGGGGCTGGGTGTGCTGCTCTACGAGATGCTGGTGGGTGAG
Seq A exon
GTGAGTGCTGGAGCCTGTTTCCTGGGCCTCTGGGTGGGGGTGGGGTGGCCCGTGCATCCTGCTGAGCCCCCATCTCCACAG
Seq C2 exon
TGCCCGTTCCCAGGGGACACAGAGGAAGAGGTGTTTGACTGCATCGTCAACATGGACGCCCCCTACCCCGGCTTTCTGTCGGTGCAAGGGCTTGAGTTCATTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160447-PKN3:NM_013355:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(18.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACCCAGGAGGCATACACA
R:
ATGAACTCAAGCCCTTGCACC
Band lengths:
179-260
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)