BtaINT0039393 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014393 | CLK2
Description
CDC-like kinase 2 [Source:HGNC Symbol;Acc:HGNC:2069]
Coordinates
chr3:15429692-15430004:+
Coord C1 exon
chr3:15429692-15429821
Coord A exon
chr3:15429822-15429921
Coord C2 exon
chr3:15429922-15430004
Length
100 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TCCTTCCCATCCTTACCTAGAGT
3' ss Score
8.46
Exon sequences
Seq C1 exon
AAGCGGGATGAGCGCAGTGTGAAGAGCACAGCTGTGCGGGTAGTAGACTTTGGCAGTGCCACCTTCGACCATGAGCACCATAGTACCATTGTCTCCACCCGCCATTATCGAGCGCCAGAGGTCATTCTTG
Seq A exon
GTAAGAGGGGGAAGGACAATCTTGTCCAAGTATGTGAGGTGGTATGGTGGTGAGGGGGGCCCCGAGCCTCATAATACCTTTCCTTCCCATCCTTACCTAG
Seq C2 exon
AGTTGGGCTGGTCTCAGCCTTGTGATGTGTGGAGTATAGGCTGTATCATCTTCGAATACTATGTTGGCTTCACCCTCTTCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014393:ENSBTAT00000019139:9
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(13.6=100)
A:
NA
C2:
PF0006920=Pkinase=FE(8.5=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:
CGGGATGAGCGCAGTGTG
R:
TTGGAAGAGGGTGAAGCCAAC
Band lengths:
210-310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]