MmuINT0124866 @ mm9
Intron Retention
Gene
ENSMUSG00000039457 | Ppl
Description
periplakin [Source:MGI Symbol;Acc:MGI:1194898]
Coordinates
chr16:5097968-5100233:-
Coord C1 exon
chr16:5100076-5100233
Coord A exon
chr16:5098147-5100075
Coord C2 exon
chr16:5097968-5098146
Length
1929 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
GGCAATCTTGATCTCTGTAGAAC
3' ss Score
5.47
Exon sequences
Seq C1 exon
ATGCCTCTGATCTTCAGGGACGACAGCTGCTGGCTGGCTTGGACAAAGTGGCCAGTGACCTGGACCGGCAGGAAAAGGCTATCACAGGGATCCTACGGCCACCACTTGAGCAGGGACGGGCAATTGAGGATAGTGCGGAGCGGGCCAAGGGTCTCAAG
Seq A exon
GTATTGCCAGGCTGGGGCTCCTGCTCAAGGTTCCACCTCTGTGGGGCCTTGGGACATTCAAAACAGGTGTTGGATAATTATAGAGGTAATTATGGAGAGCTGTCCCAAGGGTCGGGGCCCAAACAGATGCCCTGTCCTGGAGCTCTGGCATATCCCAGATGTGATCTGGCTCTGTTTCTGAGTGGCTTTTCAGCCTAGTATAACAGCCATAATAATGATAGCAGGAACTAGAGTCCTAGCAGTATCTGCTGAGTGAGGCTGTGGGCAAGAGGTGGATTGGCTGTGGAAGGGCAGATCCAGCCCACTTCTGCTTGCCCTGCCTGTGACAAGCCAGGGTCTCCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCTCTCCCCCTCCCCCTCCCCCTCCCCCTCCCCCTCCCCCTCCCCCTCCCCCTCCCCCTCTCCCTCTCCCTCTCCCTCTCCCCCCCCTCTCCCTCTCTCCTCTCTCTCTCCTCCTTCCCTATCTTCCTTCTTTCTCCTCTTCCCCTTCCTCTTCTTCCTCTTATTTCTCCTCCTCCTCCTCTTTTCTGAGACAGGGTTTCTCTCTGTGACCCTGGCTGTCCTGGAACTCACTCTGTAAACCAGGCTGGTCTCTAAGTCAGAGATCTGCCTACCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCACTGCCTGGATCAGGCGTGGGCTGGTCCTCATTTGAGCTGCTGAACCTGGTAAGAGGCCCACGTCTCCATTGACCACTACCTACTCTCATATCCTTCTGCCTGACAGCTCTCTGTGGTAGGTCCTGCCATCCCTGTTTTAGAGAAAATTAGAGTCAGAAAAATCCAGTGGTCTCTGGTGCCTGGCACAGGAGTGAGGGGTAGAGGTCCAGGGGCATAGGCCCACAGTATCACAAGACTCCAAGTTCTGTGGAGTCACAGGATGGGCATATCACAGTATCTACCTGGCAGGTTGCTCAAGATTTCATGAACTCTTTCATGAAAGGTATATAGAGTATCCTGTGTCCAGGGGCAACCTGCTGTTGTCTGAGTTACGGACTTTAGCAGTCCACTTGTACCAGATCCTCATTAAAAACACAGACCCTGGGACGGAGAAGAGAGCTTGGTCAGTGGAGTGCTTGCTTTACATAGCGCACAGGCAAGGAGGACCTCAGCTCAGTCCCCAGCACTCACATCAAAAGCTGCGCATGGCGGGACACCCCCATAATTACTTCCACTGCTGAGGAGACAGGATCACAAGGAGATCGGTGAGGCTTGCCAGCTGGCCAGCCTAATTGACAAGCCCCAGTTCCTACTAAGAGATGCTGTCTGCAAATCAAACAGACAAGGCAGGGCTCAAGAGAGGCTCAGTTTATAAAGTGCTCACACACAACCATAAGGACTGAGTTCAGATCCCTAGCATCCAGGCTTAAAAAAAAAAACTAAAACCCAGCATGGTTGCACTGGTCTATAAATCTGACTTTGGATAAAGCCTACTTGCTAATTGGTAAGCACTGTTCTCAGTGAGAGACCTGTCTTAGAAGACAAGACCGTGATCTAGAGAGAACTGACACTGACCTCTGACCTCCACATTTACACTCCCACCAACTCCACCTCTCCCTTCCACTCAAAATAAAATAGATGGCTCCCAAGGAATACTGAGGGTGACCTCTGGTTTCTCATACATATACCCACCCATGTTTGTGCACATACACACACACACAACCCACAGACTGCCAGACTGGTGATTGGGCTCCAGATGGACACCCCAGGGAGGTGAGCCTTCTCAGCCGTTCGCACTGTCCCAGGGCACATCCTTGACGGAAGAGAGCTGTAGGGCTGTGGTTGACCCGGGCAATCTTGATCTCTGTAG
Seq C2 exon
AACATTACCAATGAGCTGCTACAGATTGAGCCAGAGAAGACGCAGTGCACAGCCGAGTGTGAAGCCTTTGTGCAGGCCCTCCCGGCCAGCGGCACCGCACCCTTGCTGAAGACCCGGGTAGAAGACACCAACCAGAAATATGAGCGACTAGTATGGTTGCTAGAGGCAGCCCAGGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039457-Ppl:NM_008909:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.415 A=NA C2=0.200
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:
TGATCTTCAGGGACGACAGCT
R:
TTCTCCTGGGCTGCCTCTAG
Band lengths:
330-2259
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: