BtaINT0039400 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007304 | CLK3
Description
Bos taurus CDC-like kinase 3 (CLK3), mRNA. [Source:RefSeq mRNA;Acc:NM_001034248]
Coordinates
chr21:34445155-34445594:-
Coord C1 exon
chr21:34445498-34445594
Coord A exon
chr21:34445222-34445497
Coord C2 exon
chr21:34445155-34445221
Length
276 bp
Sequences
Splice sites
5' ss Seq
GATGTACAG
5' ss Score
-3.25
3' ss Seq
CTGTTTCTTTTCTCTCCTAGATG
3' ss Score
11.73
Exon sequences
Seq C1 exon
AGAAGCCAACAGAGCAGTAAGCGCAGCAGCCGGAGTGTGGAAGATGACAAGGAGGGCCACCTGGTGTGCCGGATCGGCGATTGGCTCCAAGAGCGAT
Seq A exon
GTACAGCCACCTTTCGTAAAACTTTACCTCTCTACTTTCTATCCCCCTTGTTAGACGAGACCTCTCCTGCCCGAGGGGCCTCTATTGCGCGTGGTGCCTTAGAGGGGCCACCAGTAATTGCCTGAATGACACAGACTCTAGCAACTTCTGTTTTTAAGAGTGTAGCAGTGAGAAAGAAACCTTTTATGTTTTTGAGAATTTGAATGCTGTGAACTTGCAGGAGCTGCCAGCCCTCTGTCCTCCAGGCTCTCATGCCCTGTTTCTTTTCTCTCCTAG
Seq C2 exon
ATGAGATCGTGGGGAACCTGGGTGAAGGCACCTTTGGCAAGGTGGTGGAGTGCTTGGACCATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007304:ENSBTAT00000009609:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.424 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(0.1=0.0)
A:
NA
C2:
PF0006920=Pkinase=PU(6.9=95.7)
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:
AGAAGCCAACAGAGCAGTAAGC
R:
CTGGCATGGTCCAAGCACTC
Band lengths:
164-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]