HsaINT0126171 @ hg19
Intron Retention
Gene
ENSG00000160447 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:17999]
Coordinates
chr9:131482482-131483199:+
Coord C1 exon
chr9:131482482-131482562
Coord A exon
chr9:131482563-131482672
Coord C2 exon
chr9:131482673-131483199
Length
110 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CGCCTCTCCTTTGCCCTCAGACC
3' ss Score
10.45
Exon sequences
Seq C1 exon
CTCCTCCAGAAGTGCCCGGAGAAGCGCCTCGGGGCAGGTGAGCAGGATGCCGAGGAGATCAAGGTCCAGCCATTCTTCAGG
Seq A exon
GTGAGCGGCTGGGGTGGCGGTGGTCCCCTGTGCCTGGCAGGGTAGGTGGCATGGAGTGACTCCTGGAGCTGCTGTTCCTGCCGTCTCAGGCGCCTCTCCTTTGCCCTCAG
Seq C2 exon
ACCACCAACTGGCAAGCCCTGCTCGCCCGCACCATCCAGCCCCCCTTCGTGCCTACCCTGTGTGGCCCTGCGGACCTGCGCTACTTTGAGGGCGAGTTCACAGGGCTGCCGCCTGCCCTGACCCCACCTGCACCCCACAGCCTCCTCACTGCCCGCCAACAGGCCGCCTTCCGGGACTTCGACTTTGTGTCAGAGCGATTCCTGGAACCCTGAGGGCATCTCCTGGCACCTCTGTCCCCTTCCCCCACAGACTGTTAGAGCCTCTGCTCGTTCACCCGTGCGCCCTGCCTGGAGGTCCAGGCCTTGCTGGGTACTTCTGAGCCCTTGGGATTCAAAGTGGCAGCCATGGGGCCACTGTTGTGGGCTTTGCTCAGTGTCACTGGGCAAAGTGTGTCCCTTCCCCCTCCAGCTCGCCCTCTTCTACCTCCCAGCGAGACCTGGCCCAGAAAGGGTGCCGCAGCAAGGAGTGATATGGTTTGTCTTTTTAAGACTGGACTTGCTTTATATTAAATTTGTAAAAGTGTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160447-PKN3:NM_013355:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=67.6)
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:
AGGATGCCGAGGAGATCAAGG
R:
TCCAGGAATCGCTCTGACACA
Band lengths:
244-354
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)