HsaINT0126138 @ hg19
Intron Retention
Gene
ENSG00000065243 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:9406]
Coordinates
chr1:89270529-89271354:+
Coord C1 exon
chr1:89270529-89270604
Coord A exon
chr1:89270605-89271179
Coord C2 exon
chr1:89271180-89271354
Length
575 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
GTTTTTTTCAACATCTACAGGCA
3' ss Score
7.82
Exon sequences
Seq C1 exon
GTTACCTTTTTTAATCCAGTTATTGAAAGAAGACCAAAACTTCAAAGACAAAAGAAAATTTTTTCAAAGCAACAAG
Seq A exon
GTAATTACTAACAATCAAATGCATAGCATTTTGATATTTTCTTAAACAATCTAATTACCATTTAAAAAGTAATAGCCATCTGTGTGGGTTTTTTTGTTGTTGTTTATTCATTTATTTCTAACTTCTTATTAAGGAATATTTTAAATGTATCCATAAGTGGAGAGACTAGTGAAATGTACAGTCACCCGGCTTCAACAATAATCAACTCATGGCCAATTTTATTTTATCCATATGCCATCCTCTCACTACTTTCTCAAATTTGAAGCAAACCCAGACATCATATTGATGTATTCATAATTATTATAATTTATATCTAAAAGATAAGATTTATTTTTAAAACCTTACTACTAGACTTAAAGAGAAAAAAACAATTTCTTACCTATTTATTTTTAAAACTACGTATGCTATTTTGCATTAGCCTTTACTAGCAAATAGTAAAAAACTAGTTTTTTTAAGTGACAAATTTTGTTTGTTCTTCGTAGATTATAAACTAATGGATAAGAATTTTTAAATTATGACTTTTGGTTATACATAAAGAAATTACTTGCTGTTTTTGTTTTTTTCAACATCTACAG
Seq C2 exon
GCAAAACATTTCTCAGAGCTCCTCAAATGAATATTAATATTGCCACTTGGGGAAGGCTAGTAAGAAGAGCTATTCCTACAGTAAATCATTCTGGCACCTTCAGCCCTCAAGCTCCTGTGCCTACTACAGTGCCAGTGGTTGATGTACGCATCCCTCAACTAGCACCTCCAGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000065243-PKN2:NM_006256:10
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=0.224
Domain overlap (PFAM):
C1:
PF051368=Phage_portal_2=PD(6.7=35.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCCAGTTATTGAAAGAAGACCAAA
R:
TAGCTGGAGGTGCTAGTTGAGG
Band lengths:
238-813
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)