MmuINT0124880 @ mm10
Intron Retention
Gene
ENSMUSG00000039457 | Ppl
Description
periplakin [Source:MGI Symbol;Acc:MGI:1194898]
Coordinates
chr16:5104451-5104781:-
Coord C1 exon
chr16:5104674-5104781
Coord A exon
chr16:5104547-5104673
Coord C2 exon
chr16:5104451-5104546
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:ENSMUST00000035672:8
Average complexity
IR
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)
A:
NA
C2:
PF0043516=Spectrin=PD(22.1=71.9)
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
- 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