DreINT0118302 @ danRer10
Intron Retention
Gene
ENSDARG00000101043 | ppl
Description
periplakin [Source:ZFIN;Acc:ZDB-GENE-041008-196]
Coordinates
chr3:36327770-36328361:-
Coord C1 exon
chr3:36328215-36328361
Coord A exon
chr3:36327922-36328214
Coord C2 exon
chr3:36327770-36327921
Length
293 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGC
5' ss Score
9.4
3' ss Seq
GCTTATTTTGTTCAACACAGGGT
3' ss Score
6.4
Exon sequences
Seq C1 exon
GATCAGGCAAAGGCCATGGACCACTTCGACGAGCGTCTGAAAAACCTCCAGAAACGCAGCTTGCAGGTTCTCCCTCTGAAGTACCGCAGGGAGACTCCTCAAAAACTGCTCCCTATCGAGGCTCTGTGTGAATACGATGCAGAAGAG
Seq A exon
GTACGCAGTCTGAGCTCTACATGCACACAGCTTATAGCTCCTCTAATACCAGTCAGTGAAACATCATGAGTAAGCGAAGAAGAAAAAAATGTTATGCTCTCTCTCTCTGTTCGGGTTTTGGATTCTCCCATTTAATGTATTTAAATCCTTAAGACGGCCTTCACCCAAACGATTCATCTCATATAAACCTCCAGAGACGTGCGCGGGGGGATTTTGTGCGGATTTCTCATTTATTTTGCAGCAGCAATATCAAGTTGAAACAGAGCTTACTTTGCTTATTTTGTTCAACACAG
Seq C2 exon
GGTTCAATTTTGCGAGGGGAGCGATACACCCTGCTCAGGAACAATGGGCCCAAATGGGACGTGAAGGACGCTAATGGACGCACCATGAGCGCTCCAGGAGTTTGCTTCATAATCCCTCCAACCGACCCTGAAGCTGTGGCCAGTGCTGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101043:ENSDART00000157729:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.373
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAGGCCATGGACCACTTCG
R:
TTGTCAGCACTGGCCACA
Band lengths:
292-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]