BtaINT0039372 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005408 | CLK1
Description
CDC-like kinase 1 [Source:HGNC Symbol;Acc:HGNC:2068]
Coordinates
chr2:89921065-89921339:-
Coord C1 exon
chr2:89921260-89921339
Coord A exon
chr2:89921156-89921259
Coord C2 exon
chr2:89921065-89921155
Length
104 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
GGATATCAATTTATTCTTAGGAA
3' ss Score
4.39
Exon sequences
Seq C1 exon
ACGCATGATAGTAAGGAACATTTGGCAATGATGGAAAGGATTCTTGGGCCTTTACCAAAACATATGATACAGAAAACCAG
Seq A exon
GTATGTTTAAGAAAAGATGCCATCAGTCAGTCACCTTTGCTAGATGTTTTTTAAGTTTTCATTGTCAACATTATAAACATGAATGGATATCAATTTATTCTTAG
Seq C2 exon
GAAACGTAAATATTTCCATCATGATCGATTAGACTGGGATGAACATAGTTCTGCTGGCAGATACGTTTCAAGGCGTTGTAAACCTCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005408:ENSBTAT00000007115:11
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:
CGCATGATAGTAAGGAACATTTGGC
R:
CTTCAGAGGTTTACAACGCCT
Band lengths:
170-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]