MmuINT0124878 @ mm10
Intron Retention
Gene
ENSMUSG00000039457 | Ppl
Description
periplakin [Source:MGI Symbol;Acc:MGI:1194898]
Coordinates
chr16:5104864-5105964:-
Coord C1 exon
chr16:5105923-5105964
Coord A exon
chr16:5105026-5105922
Coord C2 exon
chr16:5104864-5105025
Length
897 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
ACCTCGCTCTCATCCCACAGACA
3' ss Score
11.43
Exon sequences
Seq C1 exon
GAGCAGAACAGTGAACTCCAAGCCAAGTATCAGAAGTTGCTG
Seq A exon
GTGAGAAGCCCTGGGAGATGGGATAGGATGGGAGGCTTATGGACTGGGGACAGCATGCTCTAGTGTAATCATGGCGGTCTGTGAGGTGCCAGGGATGGAACTCAGGGCTTTGTGCATTCTATCTAGGTCAGCATCCTGCCATCTGAGCTATTCTAAGCTCTGCTCGGTTCTTTGTGTGGCATTGCTGCATGCCAAGCATGCACTTTGAGCATGGTCCAAGCATGTGTGTGCACAAGTACCTGCACGTATGACATGCGTGCTTGTCATTCTTATTCTACCAAACACATTGCAAGCCTCCTAGCCTTCCCTAAGCCTTCCTAGCTCTCAGTTTCTCCAGGTGCTCCTATGACCCAAGGAGCTGAGATGGAGCTTGGTTTGGAGGGTGCTCGTCCCAGTAGGCATGAAGCTCTAGGTTCCGTCCCTAATGCCAAATGAAGCCCAGGCATGGGGGTGTACACCTGTCATCCCAGAACCTGAGAGAAGAGGCAAGATAGGCAGGAGTTTAGGGTCATCCTCCATTACATAACAAGTTTGAGGTTATCCTGAGCTACATGAGACCCTGCTTCAAGTGAATCAGTAAATTAATAATGATTAAAAAAGCAAATGTAGACGACATGGCTGGTGATTTTTGAGTGCTAGCTGTGTGCTAGATGGCAAACTGAAGATTCAAGGAGATGTCAGTCCCACAGGGATCTTCTTTCTTTGTTCACTGGTTTGTCCTCAGTGCCTAAAACCGTGCAACACATCTTCATGGTGCTCAATAAATGCCTGCAAGTAAATGTGTAGAGGATCAGCGACTGATCCAAGGACCTGGCTGGGAAGTAACAGAGTGGACACTGTGGGAGGCAGGCAGGGAAGCCAAGCCGATTCTGTCTTCACCTCGCTCTCATCCCACAG
Seq C2 exon
ACAGCATCACAGGCACGGCAGCAGCACCTGAGCTCGCTGCAGGATTACATGCAGCGCTGCACCAATGAGCTGTACTGGCTGGACCAGCAAGCCAAGGGCCGCATGCAGTATGACTGGAGCGACCGCAACCTCGACTACCCCAGCCGCCGCCGCCAGTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039457:ENSMUST00000035672:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.786 A=NA C2=0.056
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(41.3=79.6)
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:
AGCAGAACAGTGAACTCCAAGC
R:
GGCTGGGGTAGTCGAGGTT
Band lengths:
186-1083
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