GgaINT0047231 @ galGal4
Intron Retention
Gene
ENSGALG00000012561 | PKP4
Description
plakophilin-4 [Source:RefSeq peptide;Acc:NP_001006529]
Coordinates
chr7:35909993-35910477:+
Coord C1 exon
chr7:35909993-35910118
Coord A exon
chr7:35910119-35910286
Coord C2 exon
chr7:35910287-35910477
Length
168 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGG
5' ss Score
4.44
3' ss Seq
TGCTGGCTTCATATCTCCAGGGT
3' ss Score
7.1
Exon sequences
Seq C1 exon
ATCCAGCAGCCACCAGTGCAAACAAACCCCTCGTGTCAGAGGGAGTTCATACCAATGCCTATCACATTAGGACAGAACCAGTACAAGGGAACCTCTACTCACCGGAACAGACATCTCTCCATGAAA
Seq A exon
GTGAGGGTCTGTTGTTTGCATTTTCAATACTACAATATATTTATTTCTGTATTAACTGCATTAAAATACAATACAGTTATGAACGTAACAAAGAGCAAAGTTCTGAAATACTTTATTTTCCTACTGTTATGCAGTTCTTGTATTCTTATGCTGGCTTCATATCTCCAG
Seq C2 exon
GGTCTGTAGGTAACTCAAGAAGTTCAACACAAATGAATTCTTATTCTGATAGCGGTTACCAGGAAGTAAGCAGCTTCCATAACAGCCAAAACTTGAACAAACCAGAAAGCAGACAGCAGCATTCCCGTATTGGAACTGCTACTAACCACTTGGTGAGAAGCTCACGAGCTGAAGGGCAGACTCTAGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012561:ENSGALT00000020513:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCACCAGTGCAAACAAAC
R:
CCAATACGGGAATGCTGCTGT
Band lengths:
253-421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]