HsaINT0126139 @ hg38
Intron Retention
Gene
ENSG00000065243 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr1:88805497-88806017:+
Coord C1 exon
chr1:88805497-88805671
Coord A exon
chr1:88805672-88805890
Coord C2 exon
chr1:88805891-88806017
Length
219 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGT
5' ss Score
7.76
3' ss Seq
GTTACTTTATCTTCTATAAGTGA
3' ss Score
2.44
Exon sequences
Seq C1 exon
GCAAAACATTTCTCAGAGCTCCTCAAATGAATATTAATATTGCCACTTGGGGAAGGCTAGTAAGAAGAGCTATTCCTACAGTAAATCATTCTGGCACCTTCAGCCCTCAAGCTCCTGTGCCTACTACAGTGCCAGTGGTTGATGTACGCATCCCTCAACTAGCACCTCCAGCTAG
Seq A exon
GTATGTGTCTGAGATTTTAAGCATCTCTTATACAAAGTTATTGGGACATTCTTACGTACTGATTATAGCAGGTGTACTGAGTCTTGCTTTTTTCCCAAGTAGTATTTTGAAAGTAGTGTTCTGTTTACTTAAAAAGTAAATTGTTTGCTTTAATTTTAAAGCTGTTTAAAATACAGACTTTCTATTACTGTTTTGGTGAGTTACTTTATCTTCTATAAG
Seq C2 exon
TGATTCTACAGTAACCAAATTGGACTTTGATCTTGAGCCTGAACCTCCTCCAGCCCCACCACGAGCTTCTTCTCTTGGAGAAATAGATGAATCTTCTGAATTAAGAGTTTTGGATATACCAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000065243:ENST00000370521:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.337 A=NA C2=0.744
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAAACATTTCTCAGAGCTCCT
R:
CTGTCCTGGTATATCCAAAACTCT
Band lengths:
302-521
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