DreINT0118319 @ danRer10
Intron Retention
Gene
ENSDARG00000101043 | ppl
Description
periplakin [Source:ZFIN;Acc:ZDB-GENE-041008-196]
Coordinates
chr3:36330595-36331090:-
Coord C1 exon
chr3:36330983-36331090
Coord A exon
chr3:36330691-36330982
Coord C2 exon
chr3:36330595-36330690
Length
292 bp
Sequences
Splice sites
5' ss Seq
GCGGTAACA
5' ss Score
5.38
3' ss Seq
AAATTAAGTTGTGTTTTTAGGCA
3' ss Score
4.67
Exon sequences
Seq C1 exon
AACTTCATCAGCAAGTGTCTGGAGTCTAAGGAGAAAACTGTCACCCAGCTGAATGAAGATGGAGAGGAACTTATTGAGCAAAACCATCCGGGAAAAAACGTCATTGCG
Seq A exon
GTAACATTAATTAATTTGGACCTTAAAATGTTTTTTTTTTATTTAAAACTGCTTTTTTTCTAGCTGAAATAAAAAAAATAAGAAAAAAATATTATCAGACATGCTGTAAAAATTAATTGCTCTGGTAAACATAATTTGGGAAATATTAAAAAACCAAAAAAAAAAAATCAAAGGGGGGCTAATAATTCTGACTTCAACTGTAAATGATTATATGATGCACACATTTATTAGCACTGTGTGCATCATTGCTGTATATATATTTTGCTTCTTCTAAATTAAGTTGTGTTTTTAG
Seq C2 exon
GCACACATGGATGCCGTTCATTCAGACTGGAAGGAATACCTCAACCTGCTTATCTGTGAAGAAAACCACCTCAAGAACATGGATGACTATCACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101043:ENSDART00000157729:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.094
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(33.0=100)
A:
NA
C2:
PF0043516=Spectrin=PD(23.6=78.1)
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:
AACTTCATCAGCAAGTGTCTGGA
R:
TTTGTGATAGTCATCCATGTTCTTGA
Band lengths:
204-496
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]