BtaINT0039413 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019414 | CLK4
Description
CDC-like kinase 4 [Source:HGNC Symbol;Acc:HGNC:13659]
Coordinates
chr7:41108851-41109225:-
Coord C1 exon
chr7:41109109-41109225
Coord A exon
chr7:41109018-41109108
Coord C2 exon
chr7:41108851-41109017
Length
91 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
TTTATTTTGATCTGTTTTAGCCG
3' ss Score
8.16
Exon sequences
Seq C1 exon
GGATGGCATACATGTAGCAGTGAAAATTGTAAAAAACGTGGGACGATATCGTGAAGCAGCTCGTTCAGAAATCCAAGTATTAGAGCATTTAAATAGTACTGATCCCAATAGTGTTTT
Seq A exon
GTAAGTATAAACTTGGAACTGTGATCCATCACGTTACATGAAATAATCAGAGTTCTATAAACTGAATCATTTTTATTTTGATCTGTTTTAG
Seq C2 exon
CCGATGTGTCCAGATGCTAGAATGGTTTGATCATCATGGTCATGTTTGTATTGTATTCGAACTCTTGGGACTTAGTACCTATGATTTCATTAAAGAAAATAGCTTTCTGCCATTTCAAATTGACCACATCAGGCAAATGGCATATCAGATCTGCCAGTCAATAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019414:ENSBTAT00000025863:6
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:
AGAGCATTTAAATAGTACTGATCCCA
R:
ATGCCATTTGCCTGATGTGGT
Band lengths:
179-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]