HsaALTA0006341-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000144283 | PKP4
Description
plakophilin 4 [Source:HGNC Symbol;Acc:HGNC:9026]
Coordinates
chr2:158631753-158634289:+
Coord C1 exon
chr2:158631753-158631941
Coord A exon
chr2:158634070-158634072
Coord C2 exon
chr2:158634073-158634289
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TCAAAATGTTGACTTTCTAGTAG
3' ss Score
3.86
Exon sequences
Seq C1 exon
GCTTACGGAGTTCCTATGCTAGTCAGCATAGTCAGCTTGGGCAAGACCTTCGTTCTGCCGTGTCTCCCGACTTGCACATTACTCCTATATATGAGGGGAGGACCTATTACAGCCCAGTGTACCGCAGCCCAAACCATGGAACTGTGGAGCTCCAAGGATCGCAGACGGCGTTGTATCGCACAGGTTCAG
Seq A exon
TAG
Seq C2 exon
GTATTGGAAATCTACAAAGGACATCCAGCCAACGAAGTACCCTTACATACCAAAGAAATAATTATGCTCTGAACACAACAGCTACCTACGCGGAGCCCTACAGGCCTATACAATACCGAGTGCAAGAGTGCAATTATAACAGGCTTCAGCATGCAGTGCCGGCTGATGATGGCACCACAAGATCCCCATCAATAGACAGCATTCAGAAGGACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000144283-53-44,53-43-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.689 A=NA C2=0.577
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping 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:
AACCATGGAACTGTGGAGCTC
R:
GGGTACTTCGTTGGCTGGATG
Band lengths:
100-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development