BtaINT0039402 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007304 | CLK3
Description
Bos taurus CDC-like kinase 3 (CLK3), mRNA. [Source:RefSeq mRNA;Acc:NM_001034248]
Coordinates
chr21:34441995-34442890:-
Coord C1 exon
chr21:34442774-34442890
Coord A exon
chr21:34442162-34442773
Coord C2 exon
chr21:34441995-34442161
Length
612 bp
Sequences
Splice sites
5' ss Seq
GTTGTGAGT
5' ss Score
6.59
3' ss Seq
CCCCATCCGTCCTTCTCCAGCCT
3' ss Score
7.8
Exon sequences
Seq C1 exon
AGGGAAGTCTCAGGTTGCCCTGAAGATCATCCGCAATGTAGGCAAGTACCGGGAGGCCGCCCGGCTAGAAATCAACGTTCTCAAGAAGATCAAGGAGAAGGACAAAGAGAACAAGTT
Seq A exon
GTGAGTGTTGGCAGGGAACGGGCGGGAAGCTTCCTAGGGGTCAGTGTCTGTCCAGTCCAGTGGCCCAGACCCACTGGGACTGAGCAGTGCCCTTTTGCCAGGTTGGCACCATGCCTTCTCCTGGCAGCCAGAGCCGGGGGAGTCCGGCGAGTGAGTCTTGCTGGAAGGAACATCTAGGTTTCAGTCTAGGCTCCGCTGCAACCAGCTCTGTGTTCTGAGGTGGCCTCCTCGCCCTGCATTTGTAAATTAGAGGCTTCGCTGGGTTGTGGTGGGCATTAGACAAGATATAAACCCAAAACTGTTTAGGTGCTCACGTAGTCAGCCATATCCAAAGGAGCACACAGACATGGAGCATTCCTCTCCGCCAAGCACTGTGCTGAGCCCTGCAGGCTCAGGAAGCTCGGCAGAGGGTGCTTGTCCTGTGGAGTGGCCTGCTTGCGCCACCTTTCTCTGAGAGCAGGGACTGTGCCCATAGTTTTCTTTCTCTTTGTAAATCTGCATCCTGTGTGTGACCCAGCAGCCTGGGAGGGAGTGGGGATGGTCTTCACCTCAGGGAGCCGGTGGGCAGCCAGCCCCCAGCACAGGCCCTGAGCCCCATCCGTCCTTCTCCAG
Seq C2 exon
CCTGTGCGTCTTGATGTCTGACTGGTTCAACTTCCACGGTCACATGTGCATCGCCTTTGAGCTCCTGGGCAAGAACACCTTTGAGTTCCTAAAGGAGAATAACTTCCAGCCTTACCCTCTACCACATGTCCGGCACATGGCCTACCAGCTCTGCCACGCCCTTAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007304:ENSBTAT00000009609:6
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAAGTCTCAGGTTGCCCT
R:
ATCTAAGGGCGTGGCAGAGC
Band lengths:
283-895
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]