MmuINT0124871 @ mm10
Intron Retention
Gene
ENSMUSG00000039457 | Ppl
Description
periplakin [Source:MGI Symbol;Acc:MGI:1194898]
Coordinates
chr16:5092365-5093279:-
Coord C1 exon
chr16:5093196-5093279
Coord A exon
chr16:5092482-5093195
Coord C2 exon
chr16:5092365-5092481
Length
714 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
ACTTCCTTTCTTTTACCCAGGAC
3' ss Score
9.32
Exon sequences
Seq C1 exon
AACTTGCTTGATGAGCTAGCAAGCAGGGAACAGGAGGTGCAGAAGGTCTATGCAGATTCCCAGCAGTACCAGCAAGCGGTGAAG
Seq A exon
GTGAGCCATGAACCCTGTCAGAGCACACAGTAGGGCCTTTTGCATTAAATGTTACAGAGCAATCTAGGTAGGTTGCTGGGGAAATGGGCAGTCGCCTTATGTAGGCCCCACCCCTTTGACAAAACAATACAGCACCAGATACCTGATATCACCCAGGAATTATATTCTTAGAACAGTCAACTCTTTGTGTGTGTGTGGGGGGGTTACCCTAAAGGAAAACAAAACAAAATGAAAAATGATGTACACCAAGCAAAATTATATAACAGCTCTAGTTATAACGGGAAAACTAGCCAACAAAGCCTTATGCAGGAATGTCTGTGTAAATGACCCAGCATCTACTTTGATGGAAAATGCCAAGGTCTCTGGTGGAGAAAGGGAGAAAGGCTTAGGATGCAGTGTTCCCCAAGGAAACAGCATTTGGCCTTTTGGAAGGCCCAAAGAGTCAACTTGGTTTGTGTCTCTACACGAGTTAGGAATTGCAGGCACATTTTCTTGTATGGATGTCACTCAGTGAGGTAGCAACTTAGCATCACTGTCTTAGCCAGCTCAGGTACAGATGTGAGGAAGTTATACAAGATTGCTAAACCAGCTCTGGCAGCTTGGAGTCCTTAGAGGGAGCATAAATCACTGTCACTTTTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTATTGCCCCTAGCTGACTACTGTACTTCCTTTCTTTTACCCAG
Seq C2 exon
GACTATGAACTTGAAGCAGAGAAGCTAAGGTCCTTGCTGGACCTGGAGAATGGACGGAACAGCCATGTGAACAAGAGAGCCAGGCTGCAGTCTCCTGCTGCCAAAGTGAAGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039457:ENSMUST00000035672:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.179 A=NA C2=0.538
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTAGCAAGCAGGGAACAGGAG
R:
TTCCTTCACTTTGGCAGCAGG
Band lengths:
183-897
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