DreEX6083055 @ danRer10
Exon Skipping
Gene
ENSDARG00000044811 | cdk9
Description
cyclin-dependent kinase 9 (CDC2-related kinase) [Source:ZFIN;Acc:ZDB-GENE-030131-321]
Coordinates
chr21:6034402-6040555:+
Coord C1 exon
chr21:6034402-6034483
Coord A exon
chr21:6036227-6036317
Coord C2 exon
chr21:6040389-6040555
Length
91 bp
Sequences
Splice sites
3' ss Seq
ATCTGTGCTCTTCTCTTCAGTTT
3' ss Score
9.88
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
Exon sequences
Seq C1 exon
AGAGGTCTTCAAGGCTAAACACCGACAGACGGGGAAGAAAGTGGCCTTGAAGAAAGTTCTGATGGAGAATGAGAAAGAAGGG
Seq A exon
TTTCCCATCACGGCTCTGAGGGAGATCAAGATCTTGCAGCTTCTCAAACACGAGAATGTGGTCAACCTCATCGAGATCTGCAGAACAAAGG
Seq C2 exon
CCACCCAGTTTAACCGTTACAAGGGCAGCATTTATCTGGTGTTTGACTTCTGTGAGCACGACCTCGCTGGACTGCTGAGCAACGCTAATGTTAAGTTCACTCTGGCGGAGATCAAGAGGGTCATGCAGATGCTGCTCAACGGACTCTACTACATACACAGAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044811-'2-7,'2-4,3-7=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(9.1=100)
A:
PF0006920=Pkinase=FE(10.1=100)
C2:
PF0006920=Pkinase=FE(18.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACAGACGGGGAAGAAAGTG
R:
TGATCTCCGCCAGAGTGAACT
Band lengths:
174-265
Functional annotations
There are 1 annotated functions for this event
PMID: 23140174
Partially encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: alanine scanning, protein kinase assay, western blot. ELM ID: ELMI003213; ELM sequence: TKASPYNR; Overlap: PARTIAL_RIGHT
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]