HsaINT0126231 @ hg38
Intron Retention
Gene
ENSG00000184363 | PKP3
Description
plakophilin 3 [Source:HGNC Symbol;Acc:HGNC:9025]
Coordinates
chr11:403618-404135:+
Coord C1 exon
chr11:403618-403771
Coord A exon
chr11:403772-403942
Coord C2 exon
chr11:403943-404135
Length
171 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
TGACCCCCGGCCTCCCACAGCCA
3' ss Score
6.72
Exon sequences
Seq C1 exon
TGGGCGGGGGTGCTGAGCCGCCTGGCCCTGGAGCAGGAGCGTATTCTGAACCCCCTGCTAGACCGTGTCAGGACCGCCGACCACCACCAGCTGCGCTCACTGACTGGCCTCATCCGAAACCTGTCTCGGAACGCTAGGAACAAGGACGAGATGT
Seq A exon
GTGAGTCGGGCAGCCCCTCGTCCCTGCCCTGCTGGACCCACATGTCAATTTTGTCTTTAAGTGTGGGCTTCAGACCACTGGGGCCAGTCCAGCTCCCTGGGGGAGGCAGGGGACCCCAGGTGCCCAGGTGGCCAGGAGTAGGGGTGCAGACTGACCCCCGGCCTCCCACAG
Seq C2 exon
CCACGAAGGTGGTGAGCCACCTGATCGAGAAGCTGCCGGGCAGCGTGGGTGAGAAGTCGCCCCCAGCCGAGGTGCTGGTCAACATCATAGCTGTGCTCAACAACCTGGTGGTGGCCAGCCCCATCGCTGCCCGAGACCTGCTGTATTTTGACGGACTCCGAAAGCTCATCTTCATCAAGAAGAAGCGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184363:ENST00000331563:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.028
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:
CCTGCTAGACCGTGTCAGGA
R:
AAAATACAGCAGGTCTCGGGC
Band lengths:
250-421
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