MmuINT0120910 @ mm10
Intron Retention
Gene
ENSMUSG00000054065 | Pkp3
Description
plakophilin 3 [Source:MGI Symbol;Acc:MGI:1891830]
Coordinates
chr7:141083263-141084259:+
Coord C1 exon
chr7:141083263-141083386
Coord A exon
chr7:141083387-141084054
Coord C2 exon
chr7:141084055-141084259
Length
668 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATA
5' ss Score
4.58
3' ss Seq
CATCTGTATATGTGCCACAGGCT
3' ss Score
5.97
Exon sequences
Seq C1 exon
CTTTGATGACATTGACCTGCCTTCAGCAGTCAAGTACCTCATGGCCTCAGACCCCAACCTGCAGGTGCTGGGAGCAGCTTACATCCAGCACAGGTGTTACAGTGATGCCGCCGCCAAGAAGCAG
Seq A exon
GTGATAAATCCCACAGACCATCCCCTGCTATCTCTTGATGTCTGCCCCACTGGCTCTGATACCCCCAGTGACTATTCTCACTAGTCCCTAACCTTCCCTGAACTATGGTCCTTAGCCCTGCTTGCTAATCACTAGGCTGGCTGGGAAAAACCTCACCTTTTCATATCCTCAGCAAAGAAAGGGCAAAAATGCCCCGTGTGTGTATGTGTGTGTATATATATATATATATATATATATATATATATATATATATACACATATACATATATATACCTTCATCACCGATATACACCTGCATACTTATACATCATATACACATATACATCATACACGTACCTGTGGCACATCTATGCTGCATCATCTCCATATACCTGAATATATATATATATATATATGTGTGTGTGTGTGTGTGTATATGTGTGTATGTATATATATATATATATATATATACACATACACACAGTCCTGTATACACCTGTAGCATGTATAGTCACTAGATCCAAACACTTGCAGCCCCAAAATATGCATGCATGGTGTACTGACTTGCATATCACCTGTACCGTCTAGAGTACTTACATACATGTGCACTTAGTTCCATGCTTGTGGACATGTCTGCATGCATTTTCACAGTCTGCATATGCCCACATACATCTGTATATGTGCCACAG
Seq C2 exon
GCTCGCAGCCTTCAGGCAGTGCCTAGACTGGTGAAGCTCTTCAACCACGCCAACCAGGAGGTGCAGCGCCACGCCACAGGTGCCATGCGCAACCTCATCTACGACAATGTAGACAACAAGCTGGCGTTGGTAGAGGAGAATGGCATTTTTGAGCTGTTGCGGACACTTCGAGAGCAGGATGATGAGCTACGCAAAAATGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054065:ENSMUST00000066873:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0051418=Arm=PU(14.6=14.3)
A:
NA
C2:
PF0051418=Arm=PD(80.5=47.8),PF0051418=Arm=PU(80.5=47.8)
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:
TTGATGACATTGACCTGCCTTCA
R:
AGCTCATCATCCTGCTCTCGA
Band lengths:
310-978
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