MmuINT0124868 @ mm9
Intron Retention
Gene
ENSMUSG00000039457 | Ppl
Description
periplakin [Source:MGI Symbol;Acc:MGI:1194898]
Coordinates
chr16:5096719-5097876:-
Coord C1 exon
chr16:5097738-5097876
Coord A exon
chr16:5096913-5097737
Coord C2 exon
chr16:5096719-5096912
Length
825 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
TCTCTTTGCCTGTCTGGCAGGCC
3' ss Score
8.93
Exon sequences
Seq C1 exon
GGTGGACGTGGCCAACCGCCTGGAGAACAGTCTGCAGCGGGGCAGGGAGCTGCTGGCCTCATACGAGAACAGGCTGATTCAGGACGACACAATGCCTGAAAGTGGTCATGTGTTGGACAGCAAGAGGCAGGAGCTGGAG
Seq A exon
GTAAACTTAGGATCTGAGGGCCATGGGGTCCTTTCTTTGGGTTCAGGACATCTGCCTCCATACCCAGATGAGGATGTGAGGGCCCTGAAGGTTTGGAGTTCCCGGCAGGTCATTCTGGAAACAAAGGCAGTGGGCTCTTTCTTGGCTGTTCCTAGGGTCTATACAGCCAGGGAGGTCTTAAAGTCACTCTTTTGCAACAGAGAGTACGGAAAACATAGGTTTCTGAAGCTCCTGATGAGCACATCTAGCAGCCTGGGCCTACAGCTCCTGGGTAGGTGCACAGCCACTGTCACCAGTGGTCTAGGACACAGGTGTGGATGTCTGAGCACTGAGGCACTCTGATCATGGCCTATAGCAATCTTTGTCTCCTTTTCATGAGCAGCCTTAGAGCAAAGCGGGCTCAGGGAGAGGCTCGAGGCTGGAGGATGGCAGGCACACATGCCACCCCTTTAGCAGTTTGCCAAATGAGACTTTTCAGAGCTGTGTTTATTATAATGAAAAGGAGCGTTGTGCTGGGCGTGATGGCGCACACCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGAGGATTTCTGAGTTCGAGGCCAGCCTGGTCTATAGAGTGAGTTCCAGGACAGCCAGGGATACACAGAGAAACCCTGACTTGAAAAACGAAAAAAAAAAAAAAAAAAAAAAAGGAACTTTGCAAAACTGGAGGGCGAGACCTCCTTTTTGTTCTTAGGCCTGAAGCTCCCCTCAAAGCAGGAGGCCCCGGTACCCTAGGGACACTGCCAGGCTCTTAGGAGCCCTGGCCACCACACTGCTGTCTCTTTGCCTGTCTGGCAG
Seq C2 exon
GCCATGGCTTCTGAGCTGCAGGCCCACAAGTCCCTCCTGGGTGAGGTGGAACAGAACCTACAGGTGGCCAAGCAGTGTTCCAGCTCACTGGCCAGCCGCTTCCAAGAGCACTGCCCTGACCTGGAGCGGCAGGAGGCCGAGGTGCACAAGCTCAACCAACGTTTCAACAACCTCAGCCAGCAGGTGGAACGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039457-Ppl:NM_008909:16
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.489 A=NA C2=0.246
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PU(30.1=66.0)
A:
NA
C2:
PF0043516=Spectrin=FE(62.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACCGCCTGGAGAACAGTC
R:
CGTTCCACCTGCTGGCTG
Band lengths:
318-1143
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: