GgaINT0056382 @ galGal4
Intron Retention
Gene
ENSGALG00000011432 | CDC42BPB
Description
CDC42 binding protein kinase beta (DMPK-like) [Source:HGNC Symbol;Acc:HGNC:1738]
Coordinates
chr5:49818317-49818610:-
Coord C1 exon
chr5:49818513-49818610
Coord A exon
chr5:49818402-49818512
Coord C2 exon
chr5:49818317-49818401
Length
111 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TGCCTCCCTCCTCAAAACAGATC
3' ss Score
9.14
Exon sequences
Seq C1 exon
GTTGCAATTCGTCGTACGTAACAGTGTACAGTGAATATGGTGTTGATGTATTTGATGTTAACACTATGGAATGGGTCCAGACTATTGGCCTGCGAAGG
Seq A exon
GTAAGTACTTTTCGTTGAATATGGAACTTAATTGGGTTAATTCCAAGTGAGATGTTCCTTCCCAGCGTATGCTAAGCCTGAGTTAATTTTCTGCCTCCCTCCTCAAAACAG
Seq C2 exon
ATCAGACCATTAAACATGGATGGCACGCTGAACCTCCTTAACTGTGAGCCACCAAGACTAATATATTTCAAAAACAAGTTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011432:ENSGALT00000018644:31
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=0.000
Domain overlap (PFAM):
C1:
PF0078017=CNH=FE(12.0=100)
A:
NA
C2:
PF0078017=CNH=PD(2.6=24.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCAATTCGTCGTACGTAACA
R:
ATATTAGTCTTGGTGGCTCACAGT
Band lengths:
162-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]