BtaINT0039389 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014393 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:HGNC:2069]
Coordinates
chr3:15426776-15427135:+
Coord C1 exon
chr3:15426776-15426842
Coord A exon
chr3:15426843-15427018
Coord C2 exon
chr3:15427019-15427135
Length
176 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CCTTTCCTGCCATCCTGTAGGGG
3' ss Score
8.92
Exon sequences
Seq C1 exon
ATGAAATTGTAAGCACCTTGGGAGAGGGGACCTTCGGCCGAGTTGTACAGTGTGTTGACCATCGCAG
Seq A exon
GTAAATGTCAGCCCATTCCAGACTCCACACCTGCTAGCCATAAAGAGGTAGTGAGGGTTATCTGGGGCTTTTTTTGGTTAATGAGCCAAAGATAGGATTTCTTAATCCCCAGGCAGCCCTGTTCATTCTTAGATATTCTTGAGATTCCAGCAAAAGCCTTTCCTGCCATCCTGTAG
Seq C2 exon
GGGTGGGGCTCGGGTTGCCCTGAAGATCATTAAAAATGTGGAAAAGTACAAGGAAGCAGCTCGCCTAGAAATCAATGTGCTGGAGAAAATCAATGAGAAGGACCCTGACAACAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014393:ENSBTAT00000019139:5
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=PU(6.9=95.7)
A:
NA
C2:
PF0006920=Pkinase=FE(12.3=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:
TTGTAAGCACCTTGGGAGAGG
R:
TTCTTGTTGTCAGGGTCCTTCT
Band lengths:
178-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]