BtaINT0039383 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014393 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:HGNC:2069]
Coordinates
chr3:15429922-15430243:+
Coord C1 exon
chr3:15429922-15430004
Coord A exon
chr3:15430005-15430163
Coord C2 exon
chr3:15430164-15430243
Length
159 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GTTCTGTCTTTGTTTCCCAGACC
3' ss Score
9.61
Exon sequences
Seq C1 exon
AGTTGGGCTGGTCTCAGCCTTGTGATGTGTGGAGTATAGGCTGTATCATCTTCGAATACTATGTTGGCTTCACCCTCTTCCAA
Seq A exon
GTAAGTGGTTGGGTGTCTTATGAGACCACCAGGCGTTCTTCTGATTTCCTTCTCTGCTGAGAATCTGCCTGCTCATTCCTCCACATTGTTTAGCTTCCTAACAGCTAGACCCCAGTATCCCTTCTCAGTCCCTTGCTCAGTTCTGTCTTTGTTTCCCAG
Seq C2 exon
ACCCATGACAACAGAGAGCATCTAGCCATGATGGAAAGGATCTTGGGTCCCATCCCTTCCCGGATGATCCGAAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014393:ENSBTAT00000019139:10
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(8.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.2=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:
CTGGTCTCAGCCTTGTGATGT
R:
GGATCATCCGGGAAGGGA
Band lengths:
146-305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]