DreINT0118307 @ danRer10
Intron Retention
Gene
ENSDARG00000101043 | ppl
Description
periplakin [Source:ZFIN;Acc:ZDB-GENE-041008-196]
Coordinates
chr3:36324394-36324820:-
Coord C1 exon
chr3:36324682-36324820
Coord A exon
chr3:36324588-36324681
Coord C2 exon
chr3:36324394-36324587
Length
94 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGC
5' ss Score
8.99
3' ss Seq
TGCTGTGCTCTTGTCTCTAGGAC
3' ss Score
11.99
Exon sequences
Seq C1 exon
ACTGCAGAACTCCTATCAGCTGGAGAACTCACTGCAGAATGGCAAAACTCTGCTGTCCACTTATGAAAACAAACTGGCAAGAGAAGAGACTGCCCCATCTGACCCCGCTTCAATAGAGAAGACCCAGCGCGAGTTGGCG
Seq A exon
GTAAGCATTGTAATCAATGATACTTCTTTCTCTTGATCTATTTTTTCCAAACAGATTCATGATGCACTGGTGTTTGCTGTGCTCTTGTCTCTAG
Seq C2 exon
GACATCGCGTCTGAGCTGAGAAGCAAAAGATCTATCATCACACAGACTGAGCAGAACCTGAGAGACGCTAAAACCAGCTGCAGTAACATGACCAATAAAGTGCAAGAGCACTGTCCTGATATCGAGAGGCAAGAGGCGGAGGTTCAGAAAATGACCAAACGCTTTGACAACCTGAACCGACAGACAGAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101043:ENSDART00000157729:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.809 A=NA C2=0.877
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:
GGCAAAACTCTGCTGTCCACT
R:
TAGCGTCTCTCAGGTTCTGCT
Band lengths:
169-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]