DreINT0047638 @ danRer10
Intron Retention
Gene
ENSDARG00000005908 | clk4b
Description
CDC-like kinase 4b [Source:ZFIN;Acc:ZDB-GENE-050227-19]
Coordinates
chr21:32252066-32252802:-
Coord C1 exon
chr21:32252589-32252802
Coord A exon
chr21:32252157-32252588
Coord C2 exon
chr21:32252066-32252156
Length
432 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAC
5' ss Score
4.93
3' ss Seq
TGATGATTCCCCAACTCCAGAGA
3' ss Score
4.49
Exon sequences
Seq C1 exon
GTGTCATATTAGCTCAAAGAGGCTGGAGTGCAGAGAGCGCAGGGCCAGAGAGGCCAGTCTGGAGCATAGCCGTTATAAGGGTCGAGTGGACCCGGTCAGAGAGACAGAGCGGGAGAAAGATGGCTACCATTACAGCCAGTCCCGAAGTGGGCGAAGTCGGCGCAGCAGCAGAGCTCGCCAACATTCACACCACCGCAGTCCTGGCTCAGACTCG
Seq A exon
GTAAACTATTTGTCGTTGCTGATTTCCACTTGAATGTATTTGTTAATGTAAGTCCATTAGTTTGTTAGTTCAGAATTAATTTAGAAAGCATCTGCTCAGGGAATCAGTTGATTCACTTCTCTCATTGGCTGCAGAAATGGCTATTTGTTGATTGGTTGAGGGTCATGAACAGAATTAGCTGTGCACTTCAAAGAACATTGTTTCCTGTCTGAAAATGTGTTGCCATGTCTTTCTTCTGTAACACACACTATGGTGGCCCTGTGCCGTTGCTTGGCGATGAATTTGAATTTGCTGCTGCCGCTGTGGCCTGACGTGGGGGTCCGAATCACTCCCTCCTCTTCATCAACCCCCCTCGCTGAATGAATGAATGATGCGTACGGGCCTGATTCTGACTGGTGTTTGATGGTGGTGATGATGATTCCCCAACTCCAG
Seq C2 exon
AGAAGCCATCGCAGGAAAAGAACCAAGAGTATTGAGGATGATGAGGAGGGTCACCTGGTCTATCACAATGGAGACATGCTAAGAGCAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005908:ENSDART00000139890:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.958 A=NA C2=0.516
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0006920=Pkinase=PU(0.1=0.0)
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:
TATTAGCTCAAAGAGGCTGGAGTG
R:
GCTCTTAGCATGTCTCCATTGTGA
Band lengths:
294-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]