MmuINT0120907 @ mm9
Intron Retention
Gene
ENSMUSG00000054065 | Pkp3
Description
plakophilin 3 [Source:MGI Symbol;Acc:MGI:1891830]
Coordinates
chr7:148275755-148276409:+
Coord C1 exon
chr7:148275755-148275842
Coord A exon
chr7:148275843-148276029
Coord C2 exon
chr7:148276030-148276409
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-Pkp3:NM_019762:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.096 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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: