HsaINT0126172 @ hg19
Intron Retention
Gene
ENSG00000160447 | PKN3
Description
protein kinase N3 [Source:HGNC Symbol;Acc:17999]
Coordinates
chr9:131468013-131469103:+
Coord C1 exon
chr9:131468013-131468158
Coord A exon
chr9:131468159-131468991
Coord C2 exon
chr9:131468992-131469103
Length
833 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CCTGTGCTATGGCTCCATAGGAG
3' ss Score
8.7
Exon sequences
Seq C1 exon
AGCCTGTGGCCTCAGGACCCCGGCCGTGGGCAGAGCAGCTCAGGGCTCGGCACCTAGAGGCTCTCCGGAGGCAGCTGCATGTGGAGCTGAAGGTGAAGCAGGGGGCTGAGAACATGACCCACACGTGCGCCAGTGGCACCCCCAAG
Seq A exon
GTAAGGCCCCACAGTCTGATGGCAGGAGCACCCTGGCCCCTGGTCTGACAGGGAAATGCACCTCAGCCATTGGGCTCATAAGGAGACACCATTCCAGCCTGCAGCCTGATGGGGAAAATACAGCCCCAAACCCCAGCTGGGTGAGGAAGGCATGGCTGTAGTCTCTAGTGTGACAGAGAAGGCCTTGCCCTGGTCTAATGGGATCCTAGCCCAGCCCCAGTCCCAACTCCCAGCATGATGTCCAGAACTGGGCCTCAGTCCTTGTCTGACAAGAAGACTTGGCTGTGGCCCTGATATGATGACGGAGGCAGGACCTTAGCCTTGATCTAATGGGGGAGGCTTAGCTTAGCCCCTGCCCTGATCTGATGGGGGAGGCTTATCCCCAGCCCTGATCTGATGGGAGAGGCTTAGCTTAGCCCCTGCCCTCATCTAATGGGGGAGGCTTAGCTTAGCCCCTGCCCTGATCTGATGGGGGAAGCATCAACCCTGCTCTGATGGGGGAGGCATGACCACAGCCCTGATCTGATGGGGGAGAGTTAGCCCCAGCCCTGATCTGATGGGGGAGAGTTAGCCCCAGCCCTGATCTGATGGGAGAGGCATGACCCCAGCCGTGATATGAAAGAGGAAATTTGACCCCAGCCCTTGTTGGTCAGATGGAAAAGGCTCCCCTGACCCACCAACTAGTCCAACAAGGGAGGCTTGACTTTAGTGTTTGGCCTAGAGGTTTCACTTTAACCCTGTTTTGATGGGGGAGACCCGGCTCCAGTTCCTGGTCTGATGGGGGAAGCTGTGGCCCAGGCCTGGTCTGATGGGCCTGTGCTATGGCTCCATAG
Seq C2 exon
GAGAGGAAGCTCCTGGCAGCTGCCCAGCAGATGCTGCGGGACAGCCAGCTGAAGGTGGCCCTGCTGCGGATGAAGATCAGCAGCCTGGAGGCCAGTGGGTCCCCGGAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160447-PKN3:NM_013355:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0218511=HR1=PU(43.8=65.3)
A:
NA
C2:
PF0218511=HR1=FE(50.7=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:
CTGTGGCCTCAGGACCCC
R:
CAGGCTGCTGATCTTCATCCG
Band lengths:
230-1063
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)