HsaINT0126121 @ hg19
Intron Retention
Gene
ENSG00000123143 | PKN1
Description
protein kinase N1 [Source:HGNC Symbol;Acc:9405]
Coordinates
chr19:14578688-14580329:+
Coord C1 exon
chr19:14578688-14578779
Coord A exon
chr19:14578780-14580152
Coord C2 exon
chr19:14580153-14580329
Length
1373 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGG
5' ss Score
4.41
3' ss Seq
TATCCCCCACCCCTCCCCAGCCT
3' ss Score
6.38
Exon sequences
Seq C1 exon
GTGCTCCTCTCCGAATTCCGGCCCAGTGGGGAGCTGTTCGCCATCAAGGCTCTGAAGAAAGGGGACATTGTGGCCCGAGACGAGGTGGAGAG
Seq A exon
GTGGGGACCTGCCGTGGTCCTCTGGGGACCTCTTTCTTCTCTTTTGGGAAATGACAGAGCAGTTCTCTCCTTGGAGCTACAGGGAGAGTGACTCATAGTAGTCACTAACGCCAGGCACAGTGGCTCTTACCTGTAATCCCAGCACTCTGGGAGGCCGAGGCAGGTGGATCACTTGGGCTCAGAATTTCAAGACCAGGCTGGGCAACATGGTGACACCCCCATCTTTACAAAAAATACAAAATAATTAGCTGGGTGTGGTGGCACATGCTTGTAGCCCCAGCTACTCATGAGGCTGAGATAGGAGGATCGCCTGAGCCCAGTAGGTCAAGGTTGCAGTGAGCTGAGATCGCGCCACTGCACTCCAGCCTGGGCAACACAGTGAGACCCTGTCTCAAAACAAAAAGTCACTAATACCTACTAGCCTAATACCAAGATAATAATAGCTCTTAGGAAAGTTATTCATTTGTTCCTCCATGTAGCCCTATAAGATAAATACTGATGGCACAGAGAGGTTCAGCAATTTACCCAAGGTCACACAGCCAGTAAGCAGCAGGTCCAGGATTCAAAGCTAGAGACTCAGGCTCTGAAGCCTGTGCCCTTTGTGGTGCCACCATACTGCCTCTGCTTTAGGGTCAGGTTCCTGGGTTCAAATCTCAATTCTGCAGCATGGGCTTGGAGATCCTGGGGAGGTCACTTCTCCCTTCAGAACCTCAGCTTCTTGGCTGGGCATGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGTGGGCAGATCATCTGAGGTCAGGACATCGAGACCAGTGTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATCAGCCAGGCATGGTGGCGGGTGCCTGTAGTCCCACCTACTTGGGAGGCTGAGGCAGGAGTATCGCTTGAACCCAGGAGGCGGAGGTTGCAGTGAGCCAAGATCGCACCACTGCACTCCAGCCTGACTCTGTCTCAAAAAAAAAAAAAAAAAAAAAAAAGAACCCCTCTTGTTGTGGAGAAGCAGAATGCTATTGCCTTCCACACATGGTTGTCAGGTGCTCTCTACACAGTGCCTAACCCCTCTAAACATTCGGTACAGGCACTGAGATTGTGCCTGGTCTTCCCAGCATCCTTTTGATAATCAGGAACCCAACTGAGAAAGACTGAAACAAGTAAAGAAATTTATTGGTCTGGATCTGAAAAGTCCAGGAGTGTGCTACCTTCAGGCATGGCTGTATCCAGGTGCTGAGATGACGTTTCTCAGTTCTGCTTCCCTCTGTATGGGCTTTGGTTGCCATCTGGGAGTCTGGAGTAAGTGGCGGCCATGGTCTCTGACTTCTATCCCCCACCCCTCCCCAG
Seq C2 exon
CCTGATGTGTGAGAAGCGGATATTGGCGGCAGTGACCAGTGCGGGACACCCCTTCCTGGTGAACCTCTTCGGCTGTTTCCAGACACCGGAGCACGTGTGCTTCGTGATGGAGTACTCGGCCGGTGGGGACCTGATGCTGCACATCCACAGCGACGTGTTCTCTGAGCCCCGTGCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000123143-PKN1:NM_002741:15
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=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(11.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(22.7=100)
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:
GTGCTCCTCTCCGAATTCCG
R:
CACGGGGCTCAGAGAACAC
Band lengths:
265-1638
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)