BtaINT0039384 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014393 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:HGNC:2069]
Coordinates
chr3:15430164-15430507:+
Coord C1 exon
chr3:15430164-15430243
Coord A exon
chr3:15430244-15430416
Coord C2 exon
chr3:15430417-15430507
Length
173 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAC
5' ss Score
5.54
3' ss Seq
ACTTCCCCCTTCCCCTCTAGGAA
3' ss Score
13.11
Exon sequences
Seq C1 exon
ACCCATGACAACAGAGAGCATCTAGCCATGATGGAAAGGATCTTGGGTCCCATCCCTTCCCGGATGATCCGAAAGACAAG
Seq A exon
GTGAACCTGGAGTGGGAGGAATGTAACCCTTCTCCTTTTCTCGCCACAGAATTGGTCTCTATCACGTTTTCTTTTGTCTTCAACACCTGGCTTGCCCTCAGCTACTTTCAGATGGGAGAAATCCCATAACAAGAGGAACCTCCTGATTCCTTAACTTCCCCCTTCCCCTCTAG
Seq C2 exon
GAAGCAGAAATATTTTTATCGGGGTCGCCTGGATTGGGATGAGAACACATCAGCTGGGCGCTACGTTCGAGAAAACTGCAAACCACTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014393:ENSBTAT00000019139:11
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(8.2=100)
A:
NA
C2:
PF0006920=Pkinase=FE(9.5=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:
ACCCATGACAACAGAGAGCAT
R:
CGAAGTGGTTTGCAGTTTTCTCG
Band lengths:
170-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]