MmuINT0120906 @ mm9
Intron Retention
Gene
ENSMUSG00000054065 | Pkp3
Description
plakophilin 3 [Source:MGI Symbol;Acc:MGI:1891830]
Coordinates
chr7:148275468-148275842:+
Coord C1 exon
chr7:148275468-148275660
Coord A exon
chr7:148275661-148275754
Coord C2 exon
chr7:148275755-148275842
Length
94 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
CCCTCTTGAAATGCCCACAGCCC
3' ss Score
6.76
Exon sequences
Seq C1 exon
CCACAAAGGTAGTGAGCCACCTGATTGAGAAGCTTCCTGGTAGTGTGGGTGAGAAGTGTCCCCCAGCTGAGGTGCTGGTCAACATCATAGCCGTGCTCAACAACCTGGTGGTAGCCAGCCCCATTGCTGCCCGGGACCTGCTCTACTTTGATGGCCTCCGAAAGCTGGTCTTCATCAAAAAGAAGAGGGATAG
Seq A exon
GTAAGGACCAACCAAACCAAAGCAACATGGCCAAGGTATGCCCTACCCATCCTACCTCCTAGCCTTGAGCCTGACCCTCTTGAAATGCCCACAG
Seq C2 exon
CCCCGACAGTGAGAAGTCTTCCCGGGCAGCCTCCAGCCTCTTGGCCAACCTCTGGCAGTACAGCAAGCTCCACCGTGACTTCCGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054065-Pkp3:NM_019762:11
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=0.096
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:
ATAGCCGTGCTCAACAACCTG
R:
GAGCTTGCTGTACTGCCAGAG
Band lengths:
177-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: