MmuINT1026846 @ mm10
Intron Retention
Gene
ENSMUSG00000054065 | Pkp3
Description
plakophilin 3 [Source:MGI Symbol;Acc:MGI:1891830]
Coordinates
chr7:141087636-141088401:+
Coord C1 exon
chr7:141087636-141087810
Coord A exon
chr7:141087811-141088283
Coord C2 exon
chr7:141088284-141088401
Length
473 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
TGACCTGCCTCCATCCCCAGGAA
3' ss Score
11.29
Exon sequences
Seq C1 exon
GGATCCTATGGAACCTGTCCTCCAGTGACCACCTAAAGGACCGCCTCGCCCGGGATACACTGGAGCAGCTCACAGATCTGGTGCTGAGCCCCCTGTCAGGGGCAGGTGGGCCTCCCCTCATCCAGCAGAATGCCTCAGAGGCAGAGATCTTCTACAATGCTACTGGCTTCCTCAG
Seq A exon
GTGTGCTAAGTGGAGGACCTGGGCCAGGAGATGATGCAGGGAAGGAGCCAGGTGCCAGAGAAGGATTAGGGGAACTCCGAAAAGAAGCAAGTTCATTTGCCACCTCGTTGACAGGAACAGTTAGCCAAGGCCACGGGGAGACATAAACAGCAGAGAAAAGAACGGGATAGACAGGACACCTGCAGCTCTATGACTCATTGAATCAAGTCTCTTGCCGGGACATCCATCTTCCTAAACTTTGAGGAGCTGGGTGGGGGATGGGTATGTGAAGGGCAGGGCCGGAAGCATCTGGTACGGTCCAGGAACAGAAGAGCACAGGGGGCGGTGCCAGCTCAGGGTGGAGACTGGTGCCTGATGATTTCATCTCCAGGACAGGGGCCTCAGGTTAAGGGTCCCTGAGGTGACACTTCGAGGTTCCCTGAGGGGACTGTGTTGGTATCCCTGGGGAAGCTCTGACCTGCCTCCATCCCCAG
Seq C2 exon
GAACCTCAGCTCAGCCTCCCAGGCCACTCGGCAGAAGATGCGCGAGTGCCATGGGCTAGTGGATGCTCTGGTCACCTACATCAACCATGCCCTGGACGTTGGCAAGTGTGAGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054065:ENSMUST00000066873:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0051418=Arm=PD(17.1=11.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCTGTCCTCCAGTGACCA
R:
TTGTCCTCACACTTGCCAACG
Band lengths:
282-755
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