MmuINT0124880 @ mm9
Intron Retention
Gene
ENSMUSG00000039457 | Ppl
Description
periplakin [Source:MGI Symbol;Acc:MGI:1194898]
Coordinates
chr16:5104544-5104874:-
Coord C1 exon
chr16:5104767-5104874
Coord A exon
chr16:5104640-5104766
Coord C2 exon
chr16:5104544-5104639
Length
127 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGT
5' ss Score
8.42
3' ss Seq
GTCTCTCCTCTTCCGGACAGGCA
3' ss Score
8.81
Exon sequences
Seq C1 exon
AATTTCATCAACCGGAACCTGGAGGCCAAAGAAGAAAGAATCAACAAACTGCACACTGAAGGTGACCAACTGCTGACAGCTGAGCACCCAGGGAGGAACTCCATTGAG
Seq A exon
GTGCGTGTTCCCCTCGTAGGCAAGGCGCCTCCCTTTCTCTGCCCTTCCCACCTGGTTTTCTATCAGTTCCTCTCCTGACAGCCCAGACTCCTGGGCTGCAGTGGCCAGTCTCTCCTCTTCCGGACAG
Seq C2 exon
GCACACATGGAGGCTGTGCATGCTGAGTGGAAGGAGTACCTGAACCTGCTCATCTGTGAGGAGAGCCATCTGAAATACATGGAAGACTACCACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039457-Ppl:NM_008909:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.611 A=NA C2=0.031
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(33.7=100),PF123293=TMF_DNA_bd=PU(91.7=91.7)
A:
NA
C2:
PF0043516=Spectrin=PD(22.1=71.9),PF123293=TMF_DNA_bd=PD(2.8=3.1),PF0043516=Spectrin=PU(5.1=12.5)
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:
TTTCATCAACCGGAACCTGGA
R:
TTGGTGGTAGTCTTCCATGTATTTCA
Band lengths:
202-329
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: