DreINT0115089 @ danRer10
Intron Retention
Gene
ENSDARG00000045331 | pkp4
Description
plakophilin 4 [Source:ZFIN;Acc:ZDB-GENE-120411-14]
Coordinates
chr6:11977843-11978306:-
Coord C1 exon
chr6:11978156-11978306
Coord A exon
chr6:11978036-11978155
Coord C2 exon
chr6:11977843-11978035
Length
120 bp
Sequences
Splice sites
5' ss Seq
TCGGTCAGT
5' ss Score
7.03
3' ss Seq
TGAATTGGGTTGCTTTGAAGGAA
3' ss Score
5.36
Exon sequences
Seq C1 exon
TTTGCGTCCTACATCCGCGCTGCTGTACGTAAAGAGAAGGGTTTGCCCATTTTGGTGGAGCTGCTAAGAATGGATAATGACAGGGTGGTCTGCTCTGTGGCTACTGCGTTACGAAACATGGCTCTGGACGCCAGGAACAAAGAGCTCATCG
Seq A exon
GTCAGTCACTCAAACCTATTGCTACCAACTTTCTTACATTCCCTTTTTTATTATATGTCGGTTTTATGTGGCCATTGCATCTTCTAAAATAAATGTTTGCTGAATTGGGTTGCTTTGAAG
Seq C2 exon
GAAAGTACGCCATGCGGGACCTGGTGACCCGTCTGCCTGGCAACGGGCCCTCGCTGCTGTCAGATGAGACGGTGGCGGCGGTTTGCTGTGCGCTGCACGAGGTCACGAGCAGGAACATGGAGAACGCCCGAGCGCTCGCCCAGACCGGCGGCATCGACAAACTGGTTACAATCAGCAGAGGACGCGGAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045331:ENSDART00000155685:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0051418=Arm=WD(100=78.4)
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:
GCGCTGCTGTACGTAAAGAGA
R:
CATGTTCCTGCTCGTGACCTC
Band lengths:
254-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]