HsaINT0130394 @ hg19
Intron Retention
Gene
ENSG00000118898 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:9273]
Coordinates
chr16:4944468-4945408:-
Coord C1 exon
chr16:4945262-4945408
Coord A exon
chr16:4944620-4945261
Coord C2 exon
chr16:4944468-4944619
Length
642 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
GTCCAGCCTGCCCCCGCCAGGGC
3' ss Score
4.29
Exon sequences
Seq C1 exon
GACCAGGAGAAGGTGCTGGACAAGTATGAGGACGTGGTGCAGGGGCTGCAGAAGCGAGGCCAGCAGGTGGTGCCCCTCAAGTACCGCCGGGAGACTCCGCTCAAGCCCATCCCCGTGGAGGCACTCTGTGACTTTGAGGGGGAGCAG
Seq A exon
GTGCGTGGGGCCAGCTCCTCTGTTCACATCACTACAAAGTTTTTGGGGTAACATGGTTGGATCCCGGGCCTCAGGCGCCGTTCTCAGGAGCCTGTGCCTGTCTCCGTGGTTGGTGTCACTCTGCCAACCCTTCCCCTGGTGCAGGCCAACTGGCACCCCTATGCCGCCCCCACCTCGGCTGCCCTGGCCTTGTGTTCCACCAGCTTAGCAACCCCAGTCCCTCCTCAGAAGTCCCAGGCCAGGTTCTCATTGGCTCACTGTGAGTCACGTGTCCATCCTACACCAATCACTGTGGCCAGGGAATGCCAGGGTCCACCCTATACCAATGACTGTGGCTGGCGAATGCCAGTCATTGGCCAGGTCCAAGTCACATGTCCATCTGGAGCTTGGGAATGGAGAAGGAGAGACCACAGGGACTGGGAATTGGGAGGGAAGGTTCCCCAAAGGGAAATGGAGGTGGGTTGCTGGGCCGGCAGCCTCAACACATGTGCTTCTCCTGCATGCCCCTCCCCACTCTACGGGGAGGGTCCAAGTGATGAGCCGGGGCTCCCCAGGTCCAAGAGTCGGGGGCTGAGATGGCAACCGGGCTCCCAGGCCCTCAGGCCCTGCCGGGATCCTGACTGTCCAGCCTGCCCCCGCCAG
Seq C2 exon
GGCCTGATCTCGCGGGGCTACAGCTACACCCTGCAGAAGAACAACGGGGAGAGCTGGGAGCTCATGGACAGCGCTGGGAACAAGCTGATTGCTCCGGCCGTGTGTTTTGTGATCCCCCCCACAGACCCTGAGGCCCTGGCTCTGGCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118898-PPL:NM_002705:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(40.5=65.3)
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:
AGGAGAAGGTGCTGGACAAGT
R:
TGTCAGCCAGAGCCAGGG
Band lengths:
294-936
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)