HsaINT0126157 @ hg19
Intron Retention
Gene
ENSG00000065243 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:9406]
Coordinates
chr1:89270074-89270604:+
Coord C1 exon
chr1:89270074-89270217
Coord A exon
chr1:89270218-89270528
Coord C2 exon
chr1:89270529-89270604
Length
311 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATA
5' ss Score
7.96
3' ss Seq
TTGAATTTTCTTCACTGCAGGTT
3' ss Score
9.9
Exon sequences
Seq C1 exon
TCACGTGAACTGGAAATTTCAGTTTATTGGCGTGATTGGCGGTCTCTGTGTGCTGTAAAATTTCTGAGGTTAGAAGATTTTTTAGACAACCAACGGCATGGCATGTGTCTCTATTTGGAACCACAGGGTACTTTATTTGCAGAG
Seq A exon
GTAATAAATGTATTTTATTAAATGTGCATAACTACAATTGAAATTACATATGTAGGCAGCATAATATAGAAGTAGAAAGAGTGTTAGGCTGAAAGACAGATGACTTGAGTTCTTGGCTGAGCTATGCCACTGAATAGGTATGTGACTTTGAGACAAATCAATTATTCTTCCTATGTCTGTTTTCTCATGTAGAAAATGAGGGGCTGGACTAAACTGTAACTAAGATTCTCTTAAGCTTTAAAATTTTATAAATTTAGTAGATTTCATGAACCATGCTATTTTCATGTCAACTTGAATTTTCTTCACTGCAG
Seq C2 exon
GTTACCTTTTTTAATCCAGTTATTGAAAGAAGACCAAAACTTCAAAGACAAAAGAAAATTTTTTCAAAGCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000065243-PKN2:NM_006256:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF051368=Phage_portal_2=FE(53.9=100)
A:
NA
C2:
PF051368=Phage_portal_2=PD(6.7=35.3)
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:
TCACGTGAACTGGAAATTTCAGT
R:
TCTTTTGTCTTTGAAGTTTTGGTCT
Band lengths:
199-510
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)