MmuINT0120907 @ mm10
Intron Retention
Gene
ENSMUSG00000054065 | Pkp3
Description
plakophilin 3 [Source:MGI Symbol;Acc:MGI:1891830]
Coordinates
chr7:141089856-141090510:+
Coord C1 exon
chr7:141089856-141089943
Coord A exon
chr7:141089944-141090130
Coord C2 exon
chr7:141090131-141090510
Length
187 bp
Sequences
Splice sites
5' ss Seq
GCGGTATGT
5' ss Score
9.45
3' ss Seq
CTGTCCTCTCTTCACTGCAGAAA
3' ss Score
10.76
Exon sequences
Seq C1 exon
CCCCGACAGTGAGAAGTCTTCCCGGGCAGCCTCCAGCCTCTTGGCCAACCTCTGGCAGTACAGCAAGCTCCACCGTGACTTCCGGGCG
Seq A exon
GTATGTTTTACAGAGCCCAGCCAACGGGGACTCAGGGCATGAGGCTCGATACAAGATGCAGGTCTCCAGGGGAGGGACACAAGCCTGGAACACAGAGGCAAGGGGTGTGCACAGAATATTATGGGGAAGACAGGATCTTAGGGAATGCAAAGGCAGTCCTGCTCATCCTGTCCTCTCTTCACTGCAG
Seq C2 exon
AAAGGCTACCGGAAAGAGGACTTCCTGGGTCCATAGGTGAAGCCTCCTGGAGATGAAGTGATTCAGCTTCCAAGAGATAGGCTCAGCTCCTGCTGTCCCACAGCACATAGAAGAGGAGCTGATGCCACAGGACCTCTCTCTCTCTCTCTCTCTCCTCTCTGGAGTCCTGTGTGTGTGCCCTTGAGGGGCCAGGGCCACCAGAAAAGAACAGGCGCTTGCAACTGGGGATTGATTGGCTTCTGCAGGGCAGGGAAAGGGGGTAGAGCTTGAGCTGCTCTGGTGTACTGGGTGGCGATTAGTCACAATGGCAAGGGCGGGGCCACCCTCGGCCTGACAGCTTTGTGACGGCAACATTGGGATTAAAGGTGGTTTTGAACACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054065:ENSMUST00000066873:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.000
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:
CTCTGGCAGTACAGCAAGCTC
R:
GCAAGCGCCTGTTCTTTTCTG
Band lengths:
258-445
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