MmuINT0124870 @ mm9
Intron Retention
Gene
ENSMUSG00000039457 | Ppl
Description
periplakin [Source:MGI Symbol;Acc:MGI:1194898]
Coordinates
chr16:5093289-5094652:-
Coord C1 exon
chr16:5094502-5094652
Coord A exon
chr16:5093373-5094501
Coord C2 exon
chr16:5093289-5093372
Length
1129 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CAGTATCTCCTGTTTTACAGAAC
3' ss Score
7.51
Exon sequences
Seq C1 exon
GGCCCAGAGCCTGCAGAGTGCCAGGGCTGCCTACGATGAATACTGCAGTGGTTACAACCGTGTGCTCCAGTTTTTGGCCAAGACTCCCAGTTATGAGCCCCAGGAGACAGACAGCCTCGGCCAGATGGAGACCAAGCTCAAGAACCAGAAG
Seq A exon
GTAAGATGGCTGCTTCTACTTTGTAATGTATGTCTGGGAGCATCAGAAGTCTTCAAGGCCTGGCTGGAGGGATGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCAGACATGGTGGCTCACAACCATCTGTAATGAGATCCAATGTCGTCTCTGGTGTGTCTGAAGACAGCTACGGTGTACTCACATTCATTTTTAGAAAAAGAAGAAGAAGAAGTTCTCAAGGCCAATGGGGCAAGACAAAGGAAGGGGCCACCGCTTTCAGCATCCTCTCACAAGCACTCCACGTCTTGCTCACCCCTTTCCCCACAATGCCCTTCACAGGCCCTGACTCAACAGATATTCATATGGCTTAGCTCATGACCGAAACACTGGGAACTCTGTGGGAAAGATCCCATTATCAAAGTTGGGGTTCCCACTTCCTCAATGCCACAAGGACCTCAGAAATCCAGTGGCTGAGGCTAAGGAAGCGAATTTGTCAGAAAAGTGCTTGCTATGCAAACATGAAGACCTGAATGTAATCACTAGAACCCCCCTAATAAGTCAAGCATGGCTATGCAAGTCCATAATTCTAGCATTGGGCAAGAACGGAAGACAAAAGGGTCCATGAAATTCATTGGCTAGCAAGCATTGCCAAATTGATCGATTTCTGGGTTCAGTGAGAGATCCTGTCTCAAAAACTAAGTGGAAAACAGTAGCAGAAAGATATATGATGTAGACTGTTAGCCTTTGTATGTGCACAGAGACGGGCAGACAGACAGACAGAGGGAAACACAGGGAAAGCCAGCTCCTGATAGTCAACTTGCTGTCCCTCCCTGGACTTGTTTTCTCAAGTCAAACAAGTTCCTCGGGCTTGGCTCACACGCTTGCTGTAGGATTACATGCTCTACCAGAGCAGAGCCTGGCATTTCAGAGCTCACAATAAACACCTGTTTCCTGGCACGAATAACCATCTTCACGGCCCTTGCTCCAGGCCTTGGCACTGCCCTTTGTGGTGAACAAATGTACACAGGAAAGCCACCCACTATGCTTCCAGCTATAGCATGTTGACTTTAGGTCCTAAGGACTCAGCCTCTGAGGAGCCTGTGTGTGTGGTTCAGCTTTGGTTTCCAGTATCTCCTGTTTTACAG
Seq C2 exon
AACTTGCTTGATGAGCTAGCAAGCAGGGAACAGGAGGTGCAGAAGGTCTATGCAGATTCCCAGCAGTACCAGCAAGCGGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039457-Ppl:NM_008909:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(5.8=11.8)
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:
AGAGCCTGCAGAGTGCCAG
R:
CTTCACCGCTTGCTGGTACTG
Band lengths:
230-1359
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: