HsaINT0126128 @ hg38
Intron Retention
Gene
ENSG00000123143 | PKN1
Description
protein kinase N1 [Source:HGNC Symbol;Acc:HGNC:9405]
Coordinates
chr19:14470771-14471859:+
Coord C1 exon
chr19:14470771-14470851
Coord A exon
chr19:14470852-14471580
Coord C2 exon
chr19:14471581-14471859
Length
729 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
TCCGCTTCCCTCCCCTGCAGACT
3' ss Score
12.04
Exon sequences
Seq C1 exon
CTGCTTCGGAGGAACCCAGAGCGGAGGCTGGGATCTAGCGAGAGAGATGCAGAAGATGTGAAGAAACAGCCCTTCTTCAGG
Seq A exon
GTGAGATTCCCCACAAGGACCTCAGTGACCCCGGCCCTCCCCCAGGGCCGATTCATCACCCCACAGCAGACGGCCCCCATGCCTAGCCGCTTTGCCTCAAGGGCCTCGTTGCGCCTCAAGGGCCTCGTTGCACCTCCAGGGCAACATCGTCACCTCCTTTGACACCCCCATTTCCCTCCTCCACTTTTGTTCCCCCCAAGGACCCTCCTAATCCCACATCTCCACTTTTCCCTTTTTTTTTTTTTTTTAGCCAGGGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCTCAATCTCGGCTCACTGCAACCTCCGCCTCCCAGGTTCATGCAGTTCTCCTGCCTCAGCCTCCCGAGTACCTGGGATTACAGGCGTGCACCACTCCACCACACCAGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCGCCATGTTGGCCAGGCTGGTCCTGAACTCCTGGCCTCAAGTGATCCTCCCGCCTCGGCCTCCCGAAGTGCTGGGATTACAGGCCTGAGCCACCACGCCGGGCCTCCACTTTTCCTAATCCGGCTTCTCCACCAGGCTCTCGCAGGTGATCCCTCCTGAGCCCCAGTCCCCCCACCCCACTTGTCCTCTGTATGCTCACTCCTCTCCGTGGTCCCCGAGCCCCAGGACTGGTCCCCACTGCAGCACGCCCCCTCCTCAGCCTCCAGGCTGACCCTCCCCTCCGCTTCCCTCCCCTGCAG
Seq C2 exon
ACTCTGGGCTGGGAAGCCCTGTTGGCCCGGCGCCTGCCACCGCCCTTTGTGCCCACGCTGTCCGGCCGCACCGACGTCAGCAACTTCGACGAGGAGTTCACCGGGGAGGCCCCCACACTGAGCCCGCCCCGCGACGCGCGGCCCCTCACAGCCGCGGAGCAGGCAGCCTTCCTGGACTTCGACTTCGTGGCCGGGGGCTGCTAGCCCCCTCCCCTGCCCCTGCCCCTGCCCCTGCCCGAGAGCTCTTAGTTTTTAAAAAGGCCTTTGGGATTTGCCGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123143:ENST00000242783:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.387 A=NA C2=0.477
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PD(9.6=92.6)
A:
NA
C2:
PF0043319=Pkinase_C=WD(100=69.1)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTTCGGAGGAACCCAGAG
R:
CGGCAAATCCCAAAGGCCTTT
Band lengths:
358-1087
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