HsaINT0130404 @ hg19
Intron Retention
Gene
ENSG00000118898 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:9273]
Coordinates
chr16:4937136-4938219:-
Coord C1 exon
chr16:4938103-4938219
Coord A exon
chr16:4937229-4938102
Coord C2 exon
chr16:4937136-4937228
Length
874 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CCTAATCCTCTTCTCTGCAGGAA
3' ss Score
9.73
Exon sequences
Seq C1 exon
GACTATGAGTTAGAAGCAGAAAAACTAAGGTCTCTTCTCGACTTGGAGAATGGAAGGAGAAGCCACGTGAGCAAGAGAGCCAGGCTCCAATCTCCTGCCACCAAAGTGAAGGAAGAG
Seq A exon
GTGAGTTCCATGGGCCAGGCGGCCTCGGGACTGAGGTGGAGGCCAAGCTGCCCTGCTCCCCAGGGAGCATGGTGTCACACGCTGGCCTCAGAGATGCACACACAACAGGGAAGCCACTGAGAGCCCTCCTGCATGCAAACAGGTTTGGTAAGAGATGAGGAACTTGTTCTAGGGCAGTGACATCAATATGCCTAGAAAGACAGCAAGGCCGGGCGCAGTGGCTCACACCTGTAATCCTAGCACTTTGGGAGGCCGAGGTGGGAGAACTGCTTGAGCCCAGGGGTTGGAGACCAGCCTGGGCAACAAAGCAGGACCCCATATCTACAAAAATATTAGCCAGGCGTGGTGGTGCAAACCTGTAGTCCCAGCTACTTGGGAGGTTGAGGAGGGAGGATCACTTGGGCCCAGGAGTTCAAGGCTGCAGTGAGCTACAATCACACCATGGCACTTCAGTCTGAGTGAAAGAGATTCTGTCTTTAAGAAATAAAAATTTTTGAAAATGCAGCTGAACAGAAGTGTCAGGGTCAGAACCATGGATCTGGGAAGTTCCTGTTTTGCTCACCTCAGTAAGTACAGTGGAGGGCTGATATTAGTCTCCTGTACACACAAGAGAGAACACTGGTGCTCTAAGAGGCAGAAAGACTTGCTCAAAGTCAGTGTGGCCAAGACCCTGGCCTGGATCTTCTGCCTCGAGATCCATTTTTCTCTCCACCGGTGAGGCTACAGTCTAACTCCAGGCAGGAGTGGGCAAGAGCTATGCCTCTACCCCCAAATTCCACACTTCTCAAGAACCACGTCCACGCTGTCTAGCTCTCTGTTGCTTACCCTGTTGACACCTGTTTGTTGACCGCTCTCCTAATCCTCTTCTCTGCAG
Seq C2 exon
GAAGCAGCACTTGCCGCCAAGTTCACTGAAGTTTATGCCATCAACAGACAGAGGCTGCAGAATCTGGAGTTTGCTCTGAATCTCCTCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118898-PPL:NM_002705:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.346 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0026115=Tropomyosin=PD(10.7=41.0)
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:
GACTATGAGTTAGAAGCAGAAAAACT
R:
CTGAGGAGATTCAGAGCAAACTCC
Band lengths:
206-1080
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)