HsaINT0126128 @ hg19
Intron Retention
Gene
ENSG00000123143 | PKN1
Description
protein kinase N1 [Source:HGNC Symbol;Acc:9405]
Coordinates
chr19:14581583-14582679:+
Coord C1 exon
chr19:14581583-14581663
Coord A exon
chr19:14581664-14582392
Coord C2 exon
chr19:14582393-14582679
Length
729 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
TCCGCTTCCCTCCCCTGCAGACT
3' ss Score
12.04
Exon sequences
Seq C1 exon
CTGCTTCGGAGGAACCCAGAGCGGAGGCTGGGATCTAGCGAGAGAGATGCAGAAGATGTGAAGAAACAGCCCTTCTTCAGG
Seq A exon
GTGAGATTCCCCACAAGGACCTCAGTGACCCCGGCCCTCCCCCAGGGCCGATTCATCACCCCACAGCAGACGGCCCCCATGCCTAGCCGCTTTGCCTCAAGGGCCTCGTTGCGCCTCAAGGGCCTCGTTGCACCTCCAGGGCAACATCGTCACCTCCTTTGACACCCCCATTTCCCTCCTCCACTTTTGTTCCCCCCAAGGACCCTCCTAATCCCACATCTCCACTTTTCCCTTTTTTTTTTTTTTTTAGCCAGGGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCTCAATCTCGGCTCACTGCAACCTCCGCCTCCCAGGTTCATGCAGTTCTCCTGCCTCAGCCTCCCGAGTACCTGGGATTACAGGCGTGCACCACTCCACCACACCAGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCGCCATGTTGGCCAGGCTGGTCCTGAACTCCTGGCCTCAAGTGATCCTCCCGCCTCGGCCTCCCGAAGTGCTGGGATTACAGGCCTGAGCCACCACGCCGGGCCTCCACTTTTCCTAATCCGGCTTCTCCACCAGGCTCTCGCAGGTGATCCCTCCTGAGCCCCAGTCCCCCCACCCCACTTGTCCTCTGTATGCTCACTCCTCTCCGTGGTCCCCGAGCCCCAGGACTGGTCCCCACTGCAGCACGCCCCCTCCTCAGCCTCCAGGCTGACCCTCCCCTCCGCTTCCCTCCCCTGCAG
Seq C2 exon
ACTCTGGGCTGGGAAGCCCTGTTGGCCCGGCGCCTGCCACCGCCCTTTGTGCCCACGCTGTCCGGCCGCACCGACGTCAGCAACTTCGACGAGGAGTTCACCGGGGAGGCCCCCACACTGAGCCCGCCCCGCGACGCGCGGCCCCTCACAGCCGCGGAGCAGGCAGCCTTCCTGGACTTCGACTTCGTGGCCGGGGGCTGCTAGCCCCCTCCCCTGCCCCTGCCCCTGCCCCTGCCCGAGAGCTCTTAGTTTTTAAAAAGGCCTTTGGGATTTGCCGGATCCTTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123143-PKN1:NM_002741:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.296 A=NA C2=0.299
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=69.1)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCTGGGATCTAGCGAGAG
R:
CAAGGATCCGGCAAATCCCAA
Band lengths:
343-1072
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)