DreINT0115092 @ danRer10
Intron Retention
Gene
ENSDARG00000045331 | pkp4
Description
plakophilin 4 [Source:ZFIN;Acc:ZDB-GENE-120411-14]
Coordinates
chr6:11975355-11975729:-
Coord C1 exon
chr6:11975612-11975729
Coord A exon
chr6:11975487-11975611
Coord C2 exon
chr6:11975355-11975486
Length
125 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGC
5' ss Score
5.52
3' ss Seq
CAATATTCTTCCACATTTAGGAG
3' ss Score
6.98
Exon sequences
Seq C1 exon
GATGGTTGGAACCAGAATCACTTCATCACCCCAGTATCAACGCTGGAACGGGACCGATACCGTTCCCAACCGACTCTGCCAACCAGCAACGTACAAATGTCCCCTGTCATCCAATCAG
Seq A exon
GTTGGCTACCAAGACCACAGTGTCATTCTGTAGAACCTGCAGAGACATTACTTCTCAAAAGACTGATATTGTTTTCTGTTTGTACTCAATTGGTGTATTGTTAATCAATATTCTTCCACATTTAG
Seq C2 exon
GAGGCAGTGCCACCTCTTCTCCTGCCATGTTGGGTATAAGAGGTCAGCGTTTAAATCAGCGAAGGACCCAGTCGTCTATGCAACTTCATAACTATTATGGAGACGCCAACAGAAACACAAGTCAATATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045331:ENSDART00000155685:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.675 A=NA C2=0.844
Domain overlap (PFAM):
C1:
NO
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:
GTTGGAACCAGAATCACTTCATCAC
R:
ATATTGACTTGTGTTTCTGTTGGCG
Band lengths:
242-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]