MmuINT0120914 @ mm10
Intron Retention
Gene
ENSMUSG00000054065 | Pkp3
Description
plakophilin 3 [Source:MGI Symbol;Acc:MGI:1891830]
Coordinates
chr7:141088481-141088924:+
Coord C1 exon
chr7:141088481-141088651
Coord A exon
chr7:141088652-141088738
Coord C2 exon
chr7:141088739-141088924
Length
87 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CCCTGTTCCTTCCCACTCAGCTT
3' ss Score
7.3
Exon sequences
Seq C1 exon
AGTGTGGAAAATGCTGTGTGTGTGCTGAGGAACCTGTCCTACCGCCTCTACGACGAGATGCCGCCATCAGCCTTGCAGCGGCTTGAAGGCCGGGGCCGCAGGGACATGGCAGGGGCTCCGCCTGGTGAAATGGTAGGCTGCTTCACACCTCAGAGTCGGCGGCTGCGAGAG
Seq A exon
GTGAGCCCAGACCCGGAAGTGCCAGACTGATGCTCTGACCCCAGCTGTACCCCTGGCGCTGGCTGATCCCTGTTCCTTCCCACTCAG
Seq C2 exon
CTTCCTCTCACAGCTGATGCACTCACCTTTGCCGAAGTATCTAAGGATCCCAAGGGCCTCGAATGGCTGTGGAGCCCCCAGATTGTGGGGTTGTACAACCGACTGCTGCAGCGCTGTGAACTAAATCGGCATACAACGGAGGCGGCCGCAGGGGCGCTACAGAATATCACCGCGGGCGACCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054065:ENSMUST00000066873:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.316 A=NA C2=0.032
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:
AACCTGTCCTACCGCCTCTAC
R:
TACTTCGGCAAAGGTGAGTGC
Band lengths:
180-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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