BtaINT0039385 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014393 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:HGNC:2069]
Coordinates
chr3:15430417-15431541:+
Coord C1 exon
chr3:15430417-15430507
Coord A exon
chr3:15430508-15431008
Coord C2 exon
chr3:15431009-15431541
Length
501 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
TTCCTGCCCTCCACCACCAGCGG
3' ss Score
7.85
Exon sequences
Seq C1 exon
GAAGCAGAAATATTTTTATCGGGGTCGCCTGGATTGGGATGAGAACACATCAGCTGGGCGCTACGTTCGAGAAAACTGCAAACCACTTCGG
Seq A exon
GTGAGCCGGACTGGGAGTGAATAGTGCCCACCACCCAGAGGTCCCTTCCTTCTTAAGGTGTTTTGCCCCTGGAATGCCTTTCACAAGCAAAGAGTTAGGAAACAAGGGGAGGAAAACTGAAAGAAGACATCTTTTGTTGATAGGAGAGAAAGGGAGTGGTTTTATGGAAGGAATGAGGTTAGACAGCCATTTATTTCTTGAGCCAACCAGAGAAAATAAACTGCCTTTGAAGAGCTTACATTTTATTGAGCTAAAGAAGATTCATGAAGTTGTCAAGGATAAAAATAAGTAGAACTTTCAGAGAGTATGAAGGAATAATTGTGCTAGTGGGAAGGCAGGTTGAGCTGTAACATCAGAAATGGCCCTGGTGTGGTCCTAGTCAAGTAGCATCATATGGTCACGAGCAGAGCCTTGGTCCTTGAGGATTGAAAGCTAGGGCCTTGAAGAAGGCGGGGCTTACAAGGCACCGTGCCTCACCTTTTTCCTGCCCTCCACCACCAG
Seq C2 exon
CGGTATTTGACCTCAGAGGCAGAGGAACACCACCAGCTCTTCGATCTGATTGAAAGCATGCTAGAGTATGAACCTGCCAAGCGGCTGACCTTGGGCGAAGCCCTTCAACACCCTTTCTTCGCCCGCCTTCGGGCTGAGCCACCTAACGCCAAGTTATGGGACTCCAGTCGAGATATCAGTCGGTGACGATCTGTCCCTGGGCACCCCTGTGTCTCTTAACAGCAGTGGGTGTCCAGTCCAGGACACTGGTGCTTTTTTATACAAGAGAACAGAGCCGGAGCTCACTCCTTCCTCCTGGCTCCCTATGTACCTGTGAATATGTGAAATAGTGTAAATATGAAAGAACTTGTACCACCGCTTCAACCCCTGCCTTGTACATAATGCTATTCCATCTCACACTCTTCCCACCCTCACCTGCCCCTTCAACAGCTGAGTTGGATCTGGGCAGAATGAGGTAACCAGAAGGCATCTACACCATGTTTTATAAGGAATTTTGTACAGTCTTTGTGAAATAAAATGATGTGCTTCACCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014393:ENSBTAT00000019139:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(9.5=100)
A:
NA
C2:
PF0006920=Pkinase=PD(12.3=62.9)
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:
GGCGCTACGTTCGAGAAAACT
R:
GGTACATAGGGAGCCAGGAGG
Band lengths:
346-847
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]