MmuALTA0013387-5/5 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000026991 | Pkp4
Description
plakophilin 4 [Source:MGI Symbol;Acc:MGI:109281]
Coordinates
chr2:59305305-59308237:+
Coord C1 exon
chr2:59305305-59305492
Coord A exon
chr2:59308008-59308195
Coord C2 exon
chr2:59308196-59308237
Length
188 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TTTTCTCCCCCTCTCATCAGCCA
3' ss Score
8.31
Exon sequences
Seq C1 exon
GATCGTTGGGAAACTCAAGAAGTTCAACACAGATGAATTCTTACTCTGACAGTGGGTACCAGGAAGCAGGGAGTTTCCACAACAGCCAAACCGTGAACAAGGCAGACAGCAGACAGCATCCATTCACAGGATCAACAAGTAACCATGTGGTGAGGACTTCAAGAGCTGAAGGACAAACACTGGTTCAG
Seq A exon
CCATCAGTAGCCAATCGGGCCATGCGGAGAGTTAGTTCAGTTCCATCTAGAGCACAGTCTCCTTCTTATGTTACCAGCACAGGCGTGTCTCCTTCAAGGGGGTCACTGAGAACTTCTCTGGGTAGTGGATTTGGCTCTCCATCAGTGACGGACTCCCGACCTCTGAACCCCAGTGCTTACTCCTCCAG
Seq C2 exon
CACGCTCCCTGCACAGCGGGCCGCCTCTCCATACTCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026991-24-32,24-31,24-30,24-29,24-28-5/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.990
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTTGGGAAACTCAAGAAGT
R:
TCTGTGAGTATGGAGAGGCGG
Band lengths:
227-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types