BtaINT0039390 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014393 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:HGNC:2069]
Coordinates
chr3:15427019-15428101:+
Coord C1 exon
chr3:15427019-15427135
Coord A exon
chr3:15427136-15427934
Coord C2 exon
chr3:15427935-15428101
Length
799 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
3' ss Seq
CCTTCCATCTCTTTTCCCAGCCT
3' ss Score
7.87
Exon sequences
Seq C1 exon
GGGTGGGGCTCGGGTTGCCCTGAAGATCATTAAAAATGTGGAAAAGTACAAGGAAGCAGCTCGCCTAGAAATCAATGTGCTGGAGAAAATCAATGAGAAGGACCCTGACAACAAGAA
Seq A exon
GTAAGCGGTGCTGGAATATGTGGGGCATCTGAGAGGCTACACCTCAAGACGGGAAAACCTTCCCAACATGGACTAGACAGGCAGAGGAGTTGTAGACTGTCTCATCTTCTGTTCATCATCGTAGAGTAGTAGAACATTACTGTTACTGAAAGGAAGGAAGGAGGGGCAGGAAGGGAGGGTCTGTGACATTCTGTAATCCATTCCCCTTGTTCTGAGGACAGTTAGATTGCTCTGCAGTTGAACTCCAACTCAGGATGACCTTTGTAGGAATGTGCCCTGGAAATGGCCCTAAGACTGAGAATCAACATTTTTCATCAAAAAAGTACTTTAAATTTTAATAGAACTATGCTGATGAAGTTGCAGGTGTTTATGTGTAGTCTTTCTGTTCACACACATTGCATAATGTAAAATTTAAGAGGATTACTGAAAGACATAAGTAGGTGTAAACATGGGCCCAGAGATGGCTGATGGTGAGTGAATTTCAAGAGCGGGAGCTGGGGTCGTGTTGATGGAGTGGCAGTTTGACAATTCAGGGTCCACACTGGAGCCTGGCACTCAGCAGCTCCTGTTTAACTATTTGAAATGTTGCAGGAAAATGGTTTGAAGTTTGTCAAGTAGTACTTCTCTTCCTGGGTCTGCCAGAAAGGCCATTCTGTAGTTGAACTGAATTTTCTTGGTGATAATAGCTGGCATGTTTTTATCCAAGTATGTGCAGTCAGCAGCAGTAGTCCTTCTTTGTTGGAGGGGTGGTGCACAGATGGGAGCTCATCAGACATCCCCCTTCCATCTCTTTTCCCAG
Seq C2 exon
CCTCTGTGTCCAGATGTTTGACTGGTTTGACTACCATGGCCACATGTGTATCTCCTTTGAGCTTCTGGGCCTTAGCACCTTCGATTTCCTCAAAGACAACAACTACCTGCCCTACCCCATCCACCAAGTGCGCCACATGGCCTTCCAGCTGTGCCAGGCCGTCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014393:ENSBTAT00000019139:6
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(12.3=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCGGGTTGCCCTGAA
R:
ACTTGACGGCCTGGCACA
Band lengths:
278-1077
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]