DreINT0118308 @ danRer10
Intron Retention
Gene
ENSDARG00000101043 | ppl
Description
periplakin [Source:ZFIN;Acc:ZDB-GENE-041008-196]
Coordinates
chr3:36322470-36324587:-
Coord C1 exon
chr3:36324394-36324587
Coord A exon
chr3:36322621-36324393
Coord C2 exon
chr3:36322470-36322620
Length
1773 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
ATTTTAAATCCATTTTTCAGATC
3' ss Score
8.94
Exon sequences
Seq C1 exon
GACATCGCGTCTGAGCTGAGAAGCAAAAGATCTATCATCACACAGACTGAGCAGAACCTGAGAGACGCTAAAACCAGCTGCAGTAACATGACCAATAAAGTGCAAGAGCACTGTCCTGATATCGAGAGGCAAGAGGCGGAGGTTCAGAAAATGACCAAACGCTTTGACAACCTGAACCGACAGACAGAAGCAAG
Seq A exon
GTGAGCTCATTGGTTAATCCGGCCCTGGACACAACTGATATAAGCAAACAGGTTGTTGAAGGTAGGAAGGAGAGTGTCTAAGCATGGTTAGAAGAAACAATGTGAGATGTTGGGCAGTTTATGAACTTGTACCACCCTCCATACTATACTTTCCTGACTCCGATTTAGTAGTTTTATATAAAGTGTATGATGGACAAACGTACACCAGAGTAGATCTGCTGCAAGTCATGGATTTAGCATGTAGTGATATAGATGAGGAACCATGTCAGGGCTGGATATGGCACACAAGAGGCTTCTTCCCCCATAGCTTCAGGACAGACCATATTGGATTACAAAGTGTTCTGGTCTGACTCGGCCCAAAGAAAAGAAACAAATTGATTTATGTTTCCACCTTTGATTTTTGTCCCTTTTAGTACTGTATACAGAAATACAGTGCATTGTAGGCTGTATACTATACAATAAACAAATTGTATGGCCCCGAACATTGAGATTAAAATGTAGTTCTCTTTAAGAACTATGTTTTAAATAATGGGTTTTCTGTATTGTGTTGTATTGTCCTCTGACTACTTGATAGTGTATATCATTTTGATCACTCTGTTTATTAATTGAGAGAAGTGCTTGATTTTGAACACAGGTAAAACTGTTTTGAAGCAAAAGATTCATTTTGCAAGAGAAGGTCAGAGGTTTTGTTAATAGTGCTTGAGGATGAGATTTTGTGTTTAATGGTGTAAGTATATTGAGCAAGGGTTCAGAAATTGTTTTAGAAATCGAGAAAAACTGCCATTACTCACCCTCATGTTGTTTCAAACTCCTGAGATTTTCATTGATCTTCAGAACACAAAATAATCAGAGAGCTCCCTCATCCTTCATAGACAGCAAGGTCTCTGACTCCCGATTCAAAGTTCGGAAAGGTACCAAAAACTTCCTCAAAGCAGTCCTAATGCCTTCAGTGGTTTAAACAGAATATTGTCGAGCTACAAGAATACTTTCTCTCCTCATTGTCAGTATATTATGTGCATTCATGTGCACTCATGTATGGACCCCATGGGTGACTTTCTCTGCTGGAAACAAAACAAGGGAGCATCTGAATACATCAGAGCTCAAGACATGAATGTGCACCTTATACTGACACTGAAGAGAAGAAACTGATGAATAAAGTTGTTGTTTTTTCTTTTATGTGTGCACAAAAGTATTCTCATAGCTTAATAATATTGCAATTGAACCACTGAAGTCTGTTTTGAGGATGTTTGAGGGAAGCTTGCTGTCTATGGAGGATTTAGATTTCATCTAAAATTTCTTAATTTGTGTTCTGATAATGAATGAAGATCTCGGGATTGAAACAACATGAGAGTGAGTAGTTACATGAGGTGATTATATAACATAATTTTAATTTTGGGGTGAACTAACACTTTTATGTCATGGTGACTCTTTATTATAATTAAATATAGTTCATTAATCATTATTTTTTCAATATATAAATTTACTATTGTTACTGTTAATTTATGGTTGGTCCAAAAACTTAATTTTGTGTTGATCTTGAACAAAACAACTACATAAAAACATACCATTACCTAAATTATTTAGTAAGATACAGTATAGATATGAAACTGTTGTTTATTGTTAGTTAAGCATATTGCAACAAATGGAAACAATCTAACCTGATTGTAAAGTGTTACCATGCTTATTTTACATAAAAATATAATTATTTTTGTCAATTATATCCTAAATTGTTTCATAGATTTTACTTTTAATTATTTTAAATCCATTTTTCAG
Seq C2 exon
ATCACAGCATCTGCAAAGAGCTAAAACAGCCTACTCCAACTACCACAATGACTATGAAAACCTCAATAGCTGGCTTTCCCGGATACCAAACTATGAGCCACGTGAAACTGATGACGTTAGACAGATTGACTCAAAACTGAAAAATCAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101043:ENSDART00000157729:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.877 A=NA C2=0.725
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACATCGCGTCTGAGCTGAG
R:
TCAGTTTTGAGTCAATCTGTCTAACG
Band lengths:
334-2107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]