HsaINT0126241 @ hg19
Intron Retention
Gene
ENSG00000184363 | PKP3
Description
plakophilin 3 [Source:HGNC Symbol;Acc:9025]
Coordinates
chr11:403078-403771:+
Coord C1 exon
chr11:403078-403263
Coord A exon
chr11:403264-403617
Coord C2 exon
chr11:403618-403771
Length
354 bp
Sequences
Splice sites
5' ss Seq
AGGGTGGGG
5' ss Score
2.21
3' ss Seq
CACACCCTCCCTCCCCACAGTGG
3' ss Score
10.57
Exon sequences
Seq C1 exon
CTGCCCCTCGCCGCCGATGCGCTCACCTTCGCGGAGGTGTCCAAGGACCCCAAGGGCCTCGAGTGGCTGTGGAGCCCCCAGATCGTGGGGCTGTACAACCGGCTGCTGCAGCGCTGCGAGCTCAACCGGCACACGACGGAGGCGGCCGCCGGGGCGCTGCAGAACATCACGGCAGGCGACCGCAGG
Seq A exon
GTGGGGCACCCAACCCAGACCCGAGGGGGTCCCAGGGGTTCATGCGGTTGAGGGGGGGACAGAGGAGGGAGAGGGAGGGGAGGAGGAAGGGGACGCCCAGGGTCCGCGGAGCCTCGGAGGTCAGCGTCCCGGTGGCGCAGGCCTTGGGCCTTGGGAGGATGGAAGTCCTGCCCTGGGTTTGAAGGGAGGCACCTGATCCGGGCTGCGGCTGATTCCCCCCGGCTGGGGGGCAAAGGCAGAAGCAGAGGCCCCCCTGAGGGTGGCGAGAGGATGCAGCGACCCCATTGTGGCAGGACCCCCTCAGGTGAGGGTCTGAGGCCTCCGGGTCACGGCTCACACCCTCCCTCCCCACAG
Seq C2 exon
TGGGCGGGGGTGCTGAGCCGCCTGGCCCTGGAGCAGGAGCGTATTCTGAACCCCCTGCTAGACCGTGTCAGGACCGCCGACCACCACCAGCTGCGCTCACTGACTGGCCTCATCCGAAACCTGTCTCGGAACGCTAGGAACAAGGACGAGATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184363-PKP3:NM_007183:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGATGCGCTCACCTTCG
R:
CATCTCGTCCTTGTTCCTAGCG
Band lengths:
326-680
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)