HsaINT0130412 @ hg38
Intron Retention
Gene
ENSG00000118898 | PPL
Description
periplakin [Source:HGNC Symbol;Acc:HGNC:9273]
Coordinates
chr16:4895594-4897770:-
Coord C1 exon
chr16:4897675-4897770
Coord A exon
chr16:4895717-4897674
Coord C2 exon
chr16:4895594-4895716
Length
1958 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
AGAGCCACCTTCTCCCCTAGTTT
3' ss Score
5.15
Exon sequences
Seq C1 exon
GCGCACATGGAGGCTGTGCACGCAGACTGGAAGGAGTACCTGAACCTGCTCATCTGCGAGGAGAGCCACCTCAAGTACATGGAGGACTACCACCAG
Seq A exon
GTACTTACCTTTCCTGGGAGTCCCCCCAGCACCGGGGGTGCTACTCTCTGAGAGCGCTCAGTGCCTACCTGGCTCATGTGTGGCCTCGTGCTCCTTGGTCCAGGAGCCTTGCGGGGCAGCCATCCCAGGCCCCCAGCACCCATGCTTCTGATGGCGTGTGCAGACATGTCCCAAGCTTGCCGGCCCCTGTCCAACTTCCCTGGGGACCAGGGCCAGAGTCTGATTCCCCAGGTCACATGGGGCCCAGGGTGAGTGTGTAGGGTTTTAATTTTGGTAAAATCTATAATATACATGCAGATACATAAAACAAAATTTGCCTTTTTTTTTTTTTTTTTTTTTTTTGAGAGAGTCTTGCCCTGTCACCCAGGCTGGAGTGCAGTCGTGCCATCTCGGCTCACTACAACCTCCACCTCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAACAGCTGGGATTACAAGTGCCCACCACCACACCCAGCTAATTTTTGTATTTTCAGTAAAGATGGGGTTTCGCCATGTTGGTCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCTCCCGCCTCGGCCTCCTAAAGTGTTGGGATTACAGGTGTGAGCCACCACACCCGGCCAGTTTGCATTTTTAAGTGTACAATTCAGTGGCATTCATTGCATTCGCAATGTTATGCAACCATCACCACCATCTACTTGCAAAACTTTCCATCACCCCAAACAGAAACCCTATACCCTGGCTGGGCACGGTAGCTCATGTCTGTAATTCCAGCACTCTGGGAAGCCGAGGCGACTGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGATGAAACCCCATCTCTACTAAAATACAAAAGTTAGCCAGGTGTGGTGGCCCATATCTGTAGTCCCAGATGGGAGGCTGAGGCAGGAGAACTGCTTGAACCCAGGAGGCAGAGGTTGCAGTGAGCTGAGATCGCGCCATTGCACTCCAGCCTGGGCGACAGAGTGAGTCTCCGCCTCAAAAAAAAAAAAAAAAAACAACCCCGTACTCATTAGGCAGTAAGTTTTCCATTCCCACTCCCCCAGCCCCAGGTCACCTTTGGTCTTCTTGCTGTCTCTATGGACTTGCCTGTTCCAGAAGTGTCACACCTAGAACGAATATGAAGAATCAGTGGGATCATGCAATCTCTGCCCTTTTGTGTCTGGCTTCTCTCACTGAGCATCATGTTTTCCGGGTTCATCCGTGTTGTAGCATTTTCAGTGCTTCACCCCTTTTTATGGCTGAATCATATCCTATTGTATGGCTAGACCACTGTGTTTATCCACTCATCTGTGGCTGGACACTTGTCTGTTTCCAGAGGAATGAGAGTTCTTAAGAAGCTGCGGGTAATTCTTAGGATTGAGGTGTCTGGGGAAAGCTGGATGTGGGCGACGCCGTGTCACTCCTCATTCCCTGTCTGAGCCGCACAGTGGGGGCTTCAGGTCCTGTTTATGGCTGCAGCCCAGGTGCTCAGCCCAGGGGATAGCTGACAGTGAACCAAGAGTTGATAGACTGAAGAATGGGCAAGAGAATTTTCGAGAACAAAAAGGGGAGGCTATTATCAAAACCTAGAAAGAAGCTATAGTATTAAGTCTGGATGTTCCTAGTACAGAGAGAGGAACTGAATCAAAGACACCTCAAGACTTACTGATACATCCAAGAAAACATGTCACAGAGGTGGCATCTCATGGATGGGTGGGAAGGGACCTGGCTTTTCCCAGTGAGGCCCCTAAGGAGCCAGCTCAGGGAGGGTGGGGCTGTCTCCACGCAGAGGAGCCTCAGGCTCAGCACAGGGTCCCATGCTGGACTCCAGGTGAACCGGAGGCCCAGCCCCGCCTGAGGGATGAGCTTGAAGCCTCCGACAGAAGCCCAGGTGCTTCTAGTGGTTTCCTGGCTGTAACAGAGCCACCTTCTCCCCTAG
Seq C2 exon
TTTCACGAAGACGTGAAGGACGCTCAGGAGCTGCTGCGCAAGGTGGACTCGGACCTGAACCAGAAGTATGGCCCTGACTTCAAGGACCGGTACCAGATTGAGCTGCTGCTGCGGGAGCTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118898:ENST00000345988:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(22.1=71.9)
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:
CACATGGAGGCTGTGCACG
R:
CAGCAGCTCAATCTGGTACCG
Band lengths:
201-2159
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