HsaINT0126131 @ hg19
Intron Retention
Gene
ENSG00000123143 | PKN1
Description
protein kinase N1 [Source:HGNC Symbol;Acc:9405]
Coordinates
chr19:14561130-14561921:+
Coord C1 exon
chr19:14561130-14561275
Coord A exon
chr19:14561276-14561707
Coord C2 exon
chr19:14561708-14561921
Length
432 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCCCACACTTCCCACCACAGGCC
3' ss Score
7.73
Exon sequences
Seq C1 exon
GGAGTCCTGACCTGGGGGCTGTGGAGCTGCGCATCGAAGAGCTGCGGCACCACTTCCGAGTGGAGCACGCGGTGGCCGAGGGTGCCAAGAACGTACTGCGCCTGCTCAGCGCTGCCAAGGCCCCGGACCGCAAGGCAGTCAGCGAG
Seq A exon
GTGAGGGGCGGAGCTTTCATTAGAGGCGGGGCTTCAGCAAGGGGCGGTGCTTCAGCAAGCGGCGGGGAGTTCACCAGGAACACCCACGGTGAGGGGTGGAGCCTCAAAGGGGGTGGGACCTTCATAAGGGGTGGGGCCTCAGCCAGGGTAGACTACTGTGAGGGGCAGGGCATCAGGCAGGAACAGTGCAACTGTGAGGGGCGGGGCCTCAGCGAGGGGGCATGGTTTCAGGCAGGAATGGCCCTCGGTGAGGGGAGGGGCCTCTCCAAGGGGCGGGGCCTGGTTTTCCCAGAGGTGGGACCAAGTTGGTTTGAGGTTTAGCCCTCTAGGGAGGAGCTCAGTGTGAGACTCAGCCTGGGGGTGGGGCCTAGGCCTGCACTTGGGAAGGGGCAAGCCTGGTCCCGCCCCCAGCCCCCACACTTCCCACCACAG
Seq C2 exon
GCCCAGGAGAAATTAACAGAATCCAACCAGAAGCTGGGGCTGCTGCGGGAGGCTCTGGAGCGGAGACTTGGGGAGCTGCCCGCCGACCACCCCAAGGGGCGGCTGCTGCGAGAAGAGCTCGCTGCGGCCTCCTCCGCTGCCTTCAGCACCCGCCTGGCCGGGCCCTTTCCCGCCACGCACTACAGCACCCTGTGCAAGCCCGCGCCGCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123143-PKN1:NM_002741:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.286 A=NA C2=0.431
Domain overlap (PFAM):
C1:
PF0218511=HR1=PU(53.4=79.6)
A:
NA
C2:
PF0218511=HR1=PD(43.8=44.4)
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:
GGAGTCCTGACCTGGGGG
R:
CAGGGTGCTGTAGTGCGTG
Band lengths:
338-770
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)