DreINT0118309 @ danRer10
Intron Retention
Gene
ENSDARG00000101043 | ppl
Description
periplakin [Source:ZFIN;Acc:ZDB-GENE-041008-196]
Coordinates
chr3:36322297-36322620:-
Coord C1 exon
chr3:36322470-36322620
Coord A exon
chr3:36322381-36322469
Coord C2 exon
chr3:36322297-36322380
Length
89 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
ACTATGTATTAAATTGACAGAAT
3' ss Score
3.1
Exon sequences
Seq C1 exon
ATCACAGCATCTGCAAAGAGCTAAAACAGCCTACTCCAACTACCACAATGACTATGAAAACCTCAATAGCTGGCTTTCCCGGATACCAAACTATGAGCCACGTGAAACTGATGACGTTAGACAGATTGACTCAAAACTGAAAAATCAAAGA
Seq A exon
GTGAGTCTTGAGTTTTTCCTGCCACTACTGACTTCATTATGAAATCATGATTTATATTTATTAACCAAAACTATGTATTAAATTGACAG
Seq C2 exon
AATCTGCTCTCTGACATCGCGAGGAAGGAATCAGACCTAAACAATGTGTCAAGAAATGCGCAGCTTTATCAGCAAGCAGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101043:ENSDART00000157729:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.725 A=NA C2=0.750
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:
TCACAGCATCTGCAAAGAGCT
R:
TTCCTTCCTCGCGATGTCAGA
Band lengths:
180-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]