DreINT0043803 @ danRer10
Intron Retention
Gene
ENSDARG00000019383 | cdc42bpb
Description
CDC42 binding protein kinase beta (DMPK-like) [Source:ZFIN;Acc:ZDB-GENE-030131-3647]
Coordinates
chr20:18518094-18518475:-
Coord C1 exon
chr20:18518394-18518475
Coord A exon
chr20:18518311-18518393
Coord C2 exon
chr20:18518094-18518310
Length
83 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
TGTGTACAATGTTTGCGCAGGTA
3' ss Score
7.33
Exon sequences
Seq C1 exon
GGATGAGGAGTTCTCTGTTAGCTCTGTGTTGGCATCTGATGTGATCCATGCCAACCATAAAGACGTTCCCTGTATATTCAGG
Seq A exon
GTAAGCTCTGAAACATGTCTTGTTCTTTAATTCATAACTGTTCATTGCTTGTGGTGCTTAATGTGTGTACAATGTTTGCGCAG
Seq C2 exon
GTAACCTCGTCGGCTCTGAAATCCTCGATCCGGCCAGTTCCTTTGCTGATTTTAGCTGAGAGCGAGGCGGAGAAGAGGAAGTGGGTGGGCATCCTAGAGGGCCTGCAGAGCATCCTAGCCAAAAACCGGCTGAAGAACCGCGTGGTGCATGTGCTGCACGAGGCCTACGACAGCAGCCTACCTGCCATCAAAACTACACTTTCTGCTGCCATCGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019383:ENSDART00000049437:26
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:
PF0016924=PH=FE(22.7=100)
A:
NA
C2:
PF0016924=PH=PD(30.3=49.3),PF0078017=CNH=PU(1.9=6.8)
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:
TGATGTGATCCATGCCAACCA
R:
CCGGTTTTTGGCTAGGATGCT
Band lengths:
175-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]