HsaINT0126141 @ hg38
Intron Retention
Gene
ENSG00000065243 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr1:88807313-88807604:+
Coord C1 exon
chr1:88807313-88807443
Coord A exon
chr1:88807444-88807528
Coord C2 exon
chr1:88807529-88807604
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
ATTGAAATTTCTCTTTTCAGATC
3' ss Score
9.59
Exon sequences
Seq C1 exon
GATTCAGAGACTGTTTTTGATATTCAGAATGACAGAAATAGTATACTTCCAAAATCTCAATCTGAATACAAGCCTGATACTCCTCAGTCAGGCCTAGAATATAGTGGTATTCAAGAACTTGAGGACAGAAG
Seq A exon
GTAAAGAATATATACCAAATTTTGCGACTACATGTTTGGTACCATACTTTATTGTCTTATTATTAATTGAAATTTCTCTTTTCAG
Seq C2 exon
ATCTCAGCAAAGGTTTCAGTTTAATCTACAAGATTTCAGGTGTTGTGCTGTCTTGGGAAGAGGACATTTTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000065243:ENST00000370521:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.759 A=NA C2=0.008
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(25.0=50.0)
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:
CCAAAATCTCAATCTGAATACAAGCC
R:
CTTTCCAAAATGTCCTCTTCCCA
Band lengths:
159-244
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