HsaINT0130397 @ hg19
Intron Retention
Gene
ENSG00000118898 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:9273]
Coordinates
chr16:4942036-4943371:-
Coord C1 exon
chr16:4943214-4943371
Coord A exon
chr16:4942215-4943213
Coord C2 exon
chr16:4942036-4942214
Length
999 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCT
5' ss Score
8.49
3' ss Seq
AGGGGCCCTGGTTCCCACAGAAC
3' ss Score
7.72
Exon sequences
Seq C1 exon
ATGCCTCTGACCTACAGGGGCGGCAGCTGCTGGCTGGCTTGGACAAGGTGGCCAGCGACCTGGACCGGCAGGAGAAGGCCATCACAGGGATCCTGCGGCCACCACTGGAGCAAGGCCGGGCTGTGCAGGACAGTGCCGAGCGGGCCAAGGACCTCAAG
Seq A exon
GTACCTGCGGGTCAGGAGCACAGGTGGGGCCGGGGGAGCCCTGCACTGGCCCCCTGGGGCCCCTATTTGAGGTCTTTTCCCCATGGAGTCTTGGGATATTCACTGCAGCTGTCTGTCAGGGACAGCCTGCTGCATGTAAAAGGGTCCCAAGTCATGGAGGTGGCAGGGCTGCTGTCATTACCTCCCCAGGAGAAAGAGCTGGCAGGACTTGCATTGTTCCTGCACGGCTTGTCGATCTGACGCCTGGCATGGCACATGGGCTGTGGAATTCCGCAGGACTGGGTCACCGGCTGGCTTGACTGCAAACACGTTAGCGTTTGTATTTATAAACTCCAGGCCTCAGTGTCTTCAGTAGGATGGGTTGGCCCTGCTCACAGGGCAGTGGCGAGGACAGGGTGAGCTGATGCCAGGGGGGACGTGGAGGGGCCACCTCCCCCCACCTCCTTTCCTATACAAAGTCTCCCACATCCTCAAGGCAGCCCTCTGAGGCAGTGAGTAGCACTCCAATTTTACAGAAGAGGATCTGGGATTGGAGAAGTGCCATAGCCCCTGATGGGGCCTCAGAGTGAGAGCCAAGTCAGGGCGAGAGGATGCCGGTCTCGGGTGTAGCCTGACCCCACAAGTCCCTTCCTAAGCTGCTGGGAGTCGTCACACCCCCACCCGTGACTGGGTGGAGTCGTAGTACTCACCTCCCGGGGTTGCCGCAAAGATTAAACAGAAGCGTCCGCGTGCAGTGCTGAGGACAGCACAGGCCCGGCAGCTGCCTGGGTGCTTCTGGTGTCACTAGTCCATTCCACCTCAGCGGTTCCCTGGGATGCTCGTGAAAAATACAGCCCTCAGGCTGGGGTCCAGATGCCGGGTCAGAGCCCCAGAATGTGCCAGGCCTCTCCAGCTGCTTCCACTGTGCCTGATGTGGGAATCTGTGCTCACCCTGGGCACATCCTCAGGGGAAGGGGCTGCCTGGCTGTGTCCAAAACTGAGGGGCCCTGGTTCCCACAG
Seq C2 exon
AACATCACCAACGAGCTACTGCGGATTGAACCTGAGAAGACGCGGAGCACGGCTGAGGGCGAAGCCTTCATCCAGGCCCTCCCAGGCAGTGGCACCACACCCCTGCTGAGGACCCGGGTGGAGGACACCAACCGGAAATACGAGCACCTCCTGCAGCTGCTGGACTTGGCCCAGGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118898-PPL:NM_002705:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.528 A=NA C2=0.567
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCCTCTGACCTACAGGG
R:
TTCTCCTGGGCCAAGTCCA
Band lengths:
337-1336
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)