HsaINT0126232 @ hg19
Intron Retention
Gene
ENSG00000184363 | PKP3
Description
plakophilin 3 [Source:HGNC Symbol;Acc:9025]
Coordinates
chr11:403943-404323:+
Coord C1 exon
chr11:403943-404135
Coord A exon
chr11:404136-404235
Coord C2 exon
chr11:404236-404323
Length
100 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
TGACTGCCCTCCACCCTCAGCCC
3' ss Score
8.12
Exon sequences
Seq C1 exon
CCACGAAGGTGGTGAGCCACCTGATCGAGAAGCTGCCGGGCAGCGTGGGTGAGAAGTCGCCCCCAGCCGAGGTGCTGGTCAACATCATAGCTGTGCTCAACAACCTGGTGGTGGCCAGCCCCATCGCTGCCCGAGACCTGCTGTATTTTGACGGACTCCGAAAGCTCATCTTCATCAAGAAGAAGCGGGACAG
Seq A exon
GTAGGGGCCGACCCAGCCGTGCAGCAGCCTGGTCAGGGGTCCTCCCAGTCCACCCTGCTTTCTGGCTGTGTGTCCCCTCCTGACTGCCCTCCACCCTCAG
Seq C2 exon
CCCCGACAGTGAGAAGTCCTCCCGGGCAGCATCCAGCCTCCTGGCCAACCTGTGGCAGTACAACAAGCTCCACCGTGACTTCCGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184363-PKP3:NM_007183:11
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=0.133
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAGCCACCTGATCGAGAAG
R:
GCTTGTTGTACTGCCACAGGT
Band lengths:
250-350
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)