DreINT0043814 @ danRer10
Intron Retention
Gene
ENSDARG00000019383 | cdc42bpb
Description
CDC42 binding protein kinase beta (DMPK-like) [Source:ZFIN;Acc:ZDB-GENE-030131-3647]
Coordinates
chr20:18573341-18575132:-
Coord C1 exon
chr20:18575037-18575132
Coord A exon
chr20:18573490-18575036
Coord C2 exon
chr20:18573341-18573489
Length
1547 bp
Sequences
Splice sites
5' ss Seq
CTGGTGTGC
5' ss Score
3.46
3' ss Seq
GATAATGTCTCCTCCTGCAGTAC
3' ss Score
7.24
Exon sequences
Seq C1 exon
ACGGCATGCTTTCGGGAAGAGAGGAACGTCCTGGTGAATGGAGACTGCCAGTGGATCACTACCCTTCATTATGCTTTTCAGGATGACAACTATCTG
Seq A exon
GTGTGCATCTGTCCCTACACACACTTATTTGCATGGAATTTAACTGAACATAACATATAAAAAACATTATTATTTTTTTGTTAGGAATAAGTTCTTTTTAATTTATTTTGAATGTTTAATAATACAGGGCTCGAAATGACCCTTTTTGCTTGGTAGCACAGGTGTTCCTAACTTTAAAAATGTATGCGCACCAACCAAGATTTATTGCATTTAAAATCAAAACTAACAAACAACCAAAAATCTGCATGCACTTGTAACTTTAGGTGGTTTCTAAAACAAAATCTGTCAGTGTTAACTCATTCTCTTGTATCCGACCTCACATTTTCATGGCTGTAGCTCCCTGTCATCTGAAGTAAGACATTCACTGAGAGATTGACCGCTGATATCAACCAATCGATTTGCGTGCAGTGGGCCAATCAGAAGAGCTTGAAGGCGGGGCAAGCATTACGGGAATTGTTTACTGCAGCAAGTTGACATGACAACTGTTTTAATCATTCCTAAGCGCTGTTTGACGCTTCTAGATGCAAATATGCATGCTGCATAAATGTCTCCTAAATCTGTGTATGCGATGAACATTCACACAAATGCTCCCAAATATATTTTGAGGTCGCATGGATAAAATTTCGGGCGCATATGCGACCAAAACGGTAGCAATTTCGAGCCCTGTGATTGCTTTATTTTTTATTATGTTTCTATTTTAAAATTCTATTTGTTTTGCAAAGTTTACATTTTTATTTCAGGGAATTGGCAAGGCAAGTTTTTCATATCCTGTTTTATTAAAGCGTTATTTTAATTAACTGAAATAGTTTTTAGTTGTTTTAGTTAATGATCTCTACCACTTATATTTGTGTATAAGATAAGCTAGCCTGTAATATTATAAGTTTTATAATAATAATATAATAAGTGTTTATTTTTAGGCTGTTATTTTAATAGTAATATTATTATTGACAGACAATTGTTTAATAAGAAGCAACAATCGAGATCATTCGCCAAAACTTACATTTCACCGAATTGGCTCCACACTGACTCTCCGCTCCACCAATAGCTGGTGTGTGGATGTAGTGCGCACTGGTGCTGTTGTCCTGTGGCAGCCGTCACATCATTCAAGTGGATGCTGCACACTGGTGGTGGTGTGAAGAGACCCCCTCATGATTATGAAGCGCTTTAGGTGTATTGCCATACACAATACATGTGCTATATAAATGCATATTACATTACATAACAAACTACATTCATAAATTAAATGTCAATTATTATCATATAACCTTAAGTTTAATAAATTATTGAGCACGTGTACATTATTATCAGGGAAATGGATAAGTTTACCATGATGAATTTTTTTTTATTTCGCAGCTTCTGATAGCACAGCCTCTAACACAGTAATTCAGGAGGTCACGGCACAATGCGTCCTGTGTGGTTTAATGATAAATATATTGCAATCACACTGCTCTTTGATGTCTTGCGTTTGATATTATGAAGTGCTGAGTCGGTGTTTGTGTAATTGAATGGTGTTGTGTGATAAGAGATGATAATGTCTCCTCCTGCAG
Seq C2 exon
TACTTGGTGATGGATTATTACGTTGGCGGTGACCTGCTGACGCTGCTTAGTAAATTTGAAGACCGGCTGCCGGAGGACATGGCCAAGTTCTACGTGGCGGAGATGGTTCTCGCCATCCACTCCATCCATCAGCAGCGCTACGTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019383:ENSDART00000049437:4
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:
PF0006920=Pkinase=FE(11.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(18.4=100)
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:
GGCATGCTTTCGGGAAGAGAG
R:
TACGTAGCGCTGCTGATGGAT
Band lengths:
238-1785
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]