HsaINT0126149 @ hg38
Intron Retention
Gene
ENSG00000065243 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr1:88832744-88833157:+
Coord C1 exon
chr1:88832744-88832851
Coord A exon
chr1:88832852-88833076
Coord C2 exon
chr1:88833077-88833157
Length
225 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TTTATTTTACATTATGCTAGCTG
3' ss Score
5.45
Exon sequences
Seq C1 exon
TCTCCCTTTCCTGGTGATGATGAAGAGGAAGTTTTTGACAGTATTGTAAATGATGAAGTAAGGTATCCAAGGTTCTTATCTACAGAAGCCATTTCTATAATGAGAAGG
Seq A exon
GTAAGAATTAAAATAAGGATAAGAATTTTTTAAAGACTACTTTAATTTTTTATACTAAAGAAAATTTCCCAGTAGAACTTTAAAAGCTGTTTTTCAGTTCATAAATGTTGCATGGCTTAGACAAAAAAAGACAAAATATATCTAAGTTTTTTAAAGTAATAATCCTTATCAGTGAATTTTATTCTATTGGTTTTATTTTAACTTTTTTATTTTACATTATGCTAG
Seq C2 exon
CTGTTAAGAAGAAATCCTGAACGGCGCCTTGGGGCTAGCGAGAAAGATGCAGAGGATGTAAAAAAGCACCCATTTTTCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000065243:ENST00000370521:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.148
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(13.5=100)
A:
NA
C2:
PF0006920=Pkinase=PD(9.6=92.6)
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:
TCTCCCTTTCCTGGTGATGATGA
R:
CCGGAAAAATGGGTGCTTTTT
Band lengths:
189-414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development