HsaINT0130405 @ hg19
Intron Retention
Gene
ENSG00000118898 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:9273]
Coordinates
chr16:4932508-4937228:-
Coord C1 exon
chr16:4937136-4937228
Coord A exon
chr16:4936049-4937135
Coord C2 exon
chr16:4932508-4936048
Length
1087 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TCTTGTCTTCTCCATCACAGCAG
3' ss Score
7.3
Exon sequences
Seq C1 exon
GAAGCAGCACTTGCCGCCAAGTTCACTGAAGTTTATGCCATCAACAGACAGAGGCTGCAGAATCTGGAGTTTGCTCTGAATCTCCTCAGACAG
Seq A exon
GTAACTGATCTTAGTAAGAAATTCTACTTCAGGCTGTTCTAACAGGTGACAAATACAGACTCTGTCTTAGAGAAATGGTTTGTGAATTGATGGAAGTGTCCCCTTGCTAACGTTTCTGGGCAGGGCCAATGCAAAGACTGGCCCGAGCCAATGCTTCTACTGACATGAGAACTTATTCAACTCAGTAAACATCTGCTGAAAGTGAATGCTATTTTCAGCTGGGCATGGTGGCTCACGCTTGTAATCCCAGCACTTTGGGAGGCCGAGGCAGGCGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTAAAACTCCGTCTCTACTAAAAATACAAAAATTAGCTGGGCGTCGTGGCGCATGCTTGTAATCCCAGCTACTCAGGAGACTGAGGCAGGAGAATTGCTTGAACCCAGGAGGTGGAGGTTGCAGGGAGCTGAGACTGTGCCACTGCACTCCAGCCTGGGCAACAGAGCGAGACTCTGTCTCAGAAAAAAAGAAAGAAACAAAAGAAAGTGAATGTTATTTTCTGAAGTCCATGATGTTGATGACAGCATTGTTTTTTAATAGCAAGACACTGGAAGCAGTTCACTCTTCATCAGCAATGGGCTAAACTGCGGTCTGTCCAGAGAGCGGAAACAATGCTGCTGGTAAATCCTGAAGCAGCACTCTCTGTGCTGAGCTGGAATGAGCTCTGTAAGTGCAGTGAGCAGCAGGAATACCATTTGTGCAGGAGAGATAAACACATGGTACATACTACAGACAGATATTCTTGTGTGAGCACAGATAGCATCTGCAAGGCTGACAGACACGCCCTAGGACGGGGACCAGAGGTGGGAGACCGTGGTTTCATTTTAAACTCTTCCACAGCTCAAAAATGTTTTACCTGATTAAAAAAAACCCCAAACTAGTTGTTTGATCCTTTTTGAAAGTAACCCTAGAACTCTACAACTAACATGAACTGGCACTGAGGGAGTCCCTTGGGGACCACAGGACAGCCACTCTGACCAGGTGGGGACAGGCCCTACATGTGCTGCCAGAGCCTGGCTTTAACCTTGTCTTGTCTTCTCCATCACAG
Seq C2 exon
CAGCCGGAAGTAGAAGTGACCCATGAGACCCTGCAAAGGAATAGGCCGGACTCTGGAGTGGAGGAGGCGTGGAAGATCAGGAAGGAACTGGATGAGGAGACTGAGCGGAGGCGGCAGCTGGAGAACGAGGTCAAGAGCACCCAGGAAGAAATCTGGACCTTGAGGAATCAGGGGCCTCAGGAATCGGTGGTGAGGAAGGAGGTGCTCAAGAAGGTGCCGGATCCCGTGCTGGAGGAGAGCTTCCAGCAGCTGCAGCGGACGCTGGCAGAGGAGCAGCACAAGAACCAGCTGCTGCAGGAGGAGCTGGAGGCACTGCAGCTGCAGCTGCGTGCCCTGGAGCAGGAGACCAGAGACGGGGGGCAGGAGTACGTGGTCAAGGAGGTCCTGCGCATCGAGCCTGACAGGGCCCAGGCGGATGAGGTCTTGCAGCTGCGGGAGGAGCTGGAGGCACTGAGGCGGCAGAAGGGCGCCCGGGAGGCAGAGGTGCTCCTCCTGCAGCAGCGTGTGGCCGCCCTGGCTGAAGAGAAGAGCCGGGCGCAGGAGAAGGTCACAGAGAAAGAGGTGGTGAAACTGCAGAATGACCCCCAGCTGGAGGCAGAGTACCAGCAGCTGCAGGAGGACCACCAGCGCCAGGACCAGCTCAGGGAGAAGCAGGAGGAGGAGCTGAGCTTCCTCCAGGACAAGCTCAAGAGGCTAGAGAAGGAGCGGGCCATGGCCGAGGGCAAGATCACCGTCAAGGAGGTGCTCAAGGTGGAGAAGGACGCGGCCACCGAGAGGGAGGTCAGCGATCTCACCCGCCAATATGAGGACGAGGCTGCCAAGGCTCGCGCTAGCCAGAGGGAGAAGACGGAGCTGCTCCGAAAGATATGGGCCTTGGAGGAGGAGAACGCCAAAGTGGTGGTGCAGGAGAAGGTGCGGGAGATCGTGCGGCCAGACCCCAAGGCGGAAAGTGAAGTGGCGAACCTCCGCCTGGAGCTTGTGGAGCAGGAGCGAAAGTACCGGGGTGCCGAGGAGCAGCTCCGGAGCTACCAGAGTGAGCTGGAGGCCCTCAGGAGGCGAGGCCCCCAGGTGGAAGTCAAAGAGGTGACTAAGGAAGTCATTAAGTACAAGACTGACCCTGAGATGGAGAAGGAGCTTCAGCGGCTCAGGGAGGAGATCGTGGACAAGACCAGACTGATCGAAAGGTGTGATTTAGAGATCTACCAGCTGAAAAAGGAAATCCAGGCCCTGAAAGACACCAAACCCCAGGTCCAGACCAAAGAGGTGGTCCAGGAGATCCTCCAATTCCAAGAAGACCCTCAAACCAAGGAGGAGGTGGCGTCTCTGAGGGCAAAGCTCTCAGAGGAGCAGAAGAAACAAGTGGATCTGGAGAGGGAAAGAGCTTCCCAGGAAGAGCAGATCGCCCGGAAAGAGGAGGAGCTCTCGCGGGTGAAGGAAAGGGTGGTGCAGCAGGAGGTGGTCAGGTATGAGGAGGAGCCAGGCCTGCGGGCCGAGGCGAGCGCCTTTGCCGAGAGCATCGATGTGGAGCTGCGGCAGATTGACAAGCTGCGGGCAGAGCTGCGGCGGCTGCAGCGCCGGCGCACCGAGCTTGAGCGGCAGCTGGAGGAGCTAGAGCGCGAGCGGCAGGCCCGCAGGGAGGCCGAGCGCGAGGTACAGCGGTTGCAGCAGCGGCTGGCAGCGCTGGAGCAGGAAGAAGCTGAGGCCCGTGAGAAGGTAACCCATACGCAGAAGGTGGTGCTGCAGCAGGACCCGCAGCAGGCGCGAGAGCATGCCCTGCTCCGACTCCAGCTGGAAGAAGAGCAGCACCGGCGGCAGCTCCTGGAGGGGGAGCTCGAGACCCTCCGGAGGAAACTGGCTGCACTGGAGAAGGCGGAGGTCAAGGAGAAGGTGGTGCTCTCCGAGAGTGTCCAGGTGGAGAAGGGCGACACCGAGCAAGAGATCCAGAGGCTCAAGAGCAGCCTGGAGGAGGAGAGCCGCAGCAAGCGCGAGCTGGACGTCGAGGTGAGCCGGCTGGAAGCCAGGCTTTCGGAGCTGGAATTCCATAACTCCAAGTCATCCAAGGAACTAGACTTTCTGAGGGAAGAGAACCACAAATTACAGCTGGAGAGGCAAAACCTGCAGCTGGAGACCCGAAGGCTCCAATCGGAAATCAACATGGCAGCGACGGAAACACGAGACCTGCGGAACATGACCGTGGCGGACTCTGGGACCAACCATGACTCCAGACTGTGGTCCCTGGAGAGGGAACTGGATGACCTCAAGAGGCTCTCCAAGGACAAAGACCTCGAGATCGACGAGCTGCAGAAGCGCCTGGGCTCCGTGGCCGTCAAGCGGGAGCAGCGGGAGAACCACCTGCGGCGCTCCATCGTAGTCATCCACCCTGACACAGGCCGCGAGCTGTCCCCGGAGGAAGCCCACCGTGCCGGGCTCATTGACTGGAACATGTTCGTGAAACTCAGAAGCCAGGAGTGCGACTGGGAGGAGATCTCAGTGAAGGGTCCCAATGGGGAGTCCTCAGTGATACACGACAGGAAGTCTGGCAAGAAGTTCTCCATCGAAGAGGCCCTGCAGAGTGGCAGGCTGACCCCTGCTCAGTATGACCGCTATGTCAACAAGGATATGTCCATCCAGGAGCTGGCGGTCTTGGTATCTGGGCAGAAGTAGGCACAGCTCTTGCAACTCTTCGTAACGGCAGACGCTGGCCCTCTCCTACGACGCAGTGACCTCCTTGGTGTCGTCCTCTCCCTTGCCCTGGTGCAGGCCAAGCATTTTATACATACCCTCGCTGCCAGGCTGCTCAGAGTCCCGCCCACATATGAGACAGGCACTGGCTGAAGACAGGCAACTCTCGTCCCAACCATCATTCACCCTGAGTGACGTACTTCATCCTCCAATGACTGGACAACTGCGATGCCTTTTCCTCCCTTTTCCTGTACACTCCCAGCAACAAACTCCTCATGATAACTGCACACAATCTGAAAACCACTGAAGGACAAGCCAACCACAGCAGCCAAGCCCACTCCTTGCAGCATGGGTACTGGTGGCACACCAGACAGTGACACTGCCCCACAAAGGCCTGGGCCCGTGGGGGCTGCTGCCTGGCATGACATCTCTCCAGATTTCTGGCTTAAAACCAACTTTCCATCCGAGAAGCCTCCTCAGTAGTTACTCTGCTCATGAGACAGATCTGGGCTCCAAGCCAGGAAAGGTGAACAGAAACCACAAGTGTCCAGCCCTCGGTGCTGGAGTGGACGTTAATTGTCAGCCACCAGACTGTCCCGGCACCTACAGAGAATGTTTCACAGTTCTGGCATTTAAATCCTTTGATAGTGGATTGTGCTGCTGTTAGCCTTAGTTTCAGTGCTTTACAAGTCTCGCTTATTATCTCACTGGTATTTAGGTATACAAAACAGTTGATTATTCACCACGCCAATATCTGGGTCTCTGTATCTCATGTAGAACATAAGAAAATGGGAACTAATAGGGAAATTTATTTATAGCATGAAAATAAACCTGGTGGCTGGAGTCTGCTTGTACGGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118898-PPL:NM_002705:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.240
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0068115=Plectin=WD(100=4.2)
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:
CCATCAACAGACAGAGGCTGC
R:
GGTTCTTGTGCTGCTCCTCTG
Band lengths:
342-1429
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)