DreINT0118320 @ danRer10
Intron Retention
Gene
ENSDARG00000101043 | ppl
Description
periplakin [Source:ZFIN;Acc:ZDB-GENE-041008-196]
Coordinates
chr3:36330382-36330690:-
Coord C1 exon
chr3:36330595-36330690
Coord A exon
chr3:36330505-36330594
Coord C2 exon
chr3:36330382-36330504
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAAGTCAGT
5' ss Score
1.98
3' ss Seq
CACTATTTTTATTTGTCCAGTTC
3' ss Score
5.7
Exon sequences
Seq C1 exon
GCACACATGGATGCCGTTCATTCAGACTGGAAGGAATACCTCAACCTGCTTATCTGTGAAGAAAACCACCTCAAGAACATGGATGACTATCACAAA
Seq A exon
GTCAGTTTGCATTAGGCCCAGTTGTTTACTGCTCTGTTGTTTCACTTTTGCTTTTCAGTCTTGCTCATTGCACTATTTTTATTTGTCCAG
Seq C2 exon
TTCCAAAAGGAGGCAAGAGACACCAGTGACTTGATGAAGCGCCTGGAAACAGAGATCAACCAGAAGTATAATCCTGAGTTCAAAGACATGTATCAGATGGAGGGTCTGATTGCTGACCTAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101043:ENSDART00000157729:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.094 A=NA C2=0.098
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(23.6=78.1)
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:
ACCTCAACCTGCTTATCTGTGA
R:
AGGTCAGCAATCAGACCCTCC
Band lengths:
178-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]