DreINT0118317 @ danRer10
Intron Retention
Gene
ENSDARG00000101043 | ppl
Description
periplakin [Source:ZFIN;Acc:ZDB-GENE-041008-196]
Coordinates
chr3:36331258-36333172:-
Coord C1 exon
chr3:36333131-36333172
Coord A exon
chr3:36331420-36333130
Coord C2 exon
chr3:36331258-36331419
Length
1711 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TTTGGCTTTGTCCATTTCAGGCA
3' ss Score
10.38
Exon sequences
Seq C1 exon
GACAGTTTGGATGGCCAGCAGGCGAGGTACAACAGACTACTG
Seq A exon
GTAAGATGTAATTTTTTGCATTTAAAGTCCCTCTGAAATCCAAACTAGGATAGTATCAATATGATAGTCTTGATGTTATCTAAAAACATGTGTATTCTAATTTCATATTTGGAAAACATAAGCATTCCGATCTGGCAGTTTCTCACCAATATGCATCAACAGTGTTTTATGACATCACACTACACTTCAGTTTCTCATCAGATCGTCTGACCAATCAAATGATCTCTAGTCTCTGACATTGCAAAATGCTTTTCTTGCTTAGATTTTTTTGTCTTGTTTCTAGTCCAAATATCAAAAAAATTGATAAATTAAGAAGCATTATCTAGGCAAGCAAAATGTATTGTCTTGTTTTAAGAAATAATATGCCAATATTAAGTGAGTTTTTACTTAAAACAATCAACCCCACTCAATGTTTGTGCTGCAAAACTCCCCTTACTGTAAAACACATTTTACTGGACTGTCTTGCTTTTAAAGATTCTAGAAGACTTTTTTTATGAAAAGAACTCTCTTAAAGACAATTTTAGCACAGTGACACCAGAATTCTTTTTAGGATTCTTATCATGTAGTAGTAGTAGTAGTAAAAACTTTATTGTCCTTGACAGGAGAATTGTTATGGGCATCGCCATATTGCTGCAGACACTCACTAAAACAAGCAATAAAAAAAACAATAGAAAATACAACCATTTCAAAATGTATAGTGCTAATTAAGATATACTCTTATTAAATAAACCCACTGACACAGGTACACAGGATTTCTGATAGCGGTTTAACCTACACTTTGGTACTTTATATCTTCTACCAGAGGGAAGCATTTCATACTGTGGAAACAAAAAATGAGTTGGATCGTTTACAATCCTTTCCACCTGATTGAGGACACAGTTCTCATATAAAACTTGAGGATTAAAATATTCATCGTGCCCGACAATTTTCCATGCTGTCTTTAAGAGATGCATCAGTTTAGATTTACACTGAACAGATAGGTTGCCAAACCACGCTGTGATGCCATACCTGACAATGCTTTCCAGAACTGCTTTATAAAACAACATCATGAGCTTTTTTTATTATTATTAATTATTTTTAAATATTAAATATTATTTTTTATTAATTAATAATTTATTTTATTATTACTTTAATATTATTTTTTAGTAATATTCTATTAATACTAAAAATCCTATTTAACTTGTGTATTCATTTGTTTGTTGTTCTTAATTGTTTATTTATTATTGAATTGTTCTTGCCATGAAAATAGCCAGGGTTGCTGACATGGTAATAAATAAAAAATATATTACATTAATTAAAACAAGCAAAATAATCTGCCAATAGGGTAAGAAAAAAAATCTTATGTCAAGAGGAAAATCGAGATTATTTTGCTTGTTTTAAGTAAAAACTCACTTAATATTGCCATAATATTTCTTAAAACAAGGCGATGTGGAATACATGCGATACACTAAGTCTAAACTAAACTAAGTTTTACACGCAATTACAATTTTCTAAATGGAAAATGTCACATAGTTGATTAAATAGAAATGAAATGCCATTGGCTATTTTAAAGCAGAGGGGCTATCCAGTAAGTTTCAGTTGAAAGTACATCATAAAACAAAGTTGCGCTCTTGAAAGCACTTTTGGGGACTTTTATTTTGCAGCTTAGTTATGCGTGGATATTATAATGTTTTATTCTTAAAACATGTCTGTTTGGCTTTGTCCATTTCAG
Seq C2 exon
GCAACCTCCACGGCACGGCAGAAGAACCTGCTCAGTATGAGGGACTACATGCAGCGCTGCACCAACGAGCTCTACTGGATGGACCAGCAAGCCGAAGAGCGAATCGCATATGACTGGAGCGACAACAACCTGGATTACCCAGCCCGAAAGAGGCAGTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101043:ENSDART00000157729:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.571 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(40.6=79.6)
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:
GACAGTTTGGATGGCCAGCAG
R:
GTACTGCCTCTTTCGGGCTG
Band lengths:
201-1912
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]