RnoEX6016474 @ rn6
Exon Skipping
Gene
ENSRNOG00000022586 | Cdk9
Description
cyclin-dependent kinase 9 [Source:RGD Symbol;Acc:1359638]
Coordinates
chr3:11744502-11746533:-
Coord C1 exon
chr3:11746452-11746533
Coord A exon
chr3:11745047-11745137
Coord C2 exon
chr3:11744502-11744668
Length
91 bp
Sequences
Splice sites
3' ss Seq
CCTCTCTTTCTCCTCCCTAGTTC
3' ss Score
10.63
5' ss Seq
AAGGTACGA
5' ss Score
9.78
Exon sequences
Seq C1 exon
GGAAGTATTTAAAGCCAAGCACCGTCAGACCGGCCAGAAGGTGGCTCTGAAGAAAGTGTTGATGGAGAATGAGAAGGAGGGG
Seq A exon
TTCCCCATCACAGCCTTGCGGGAAATCAAGATTCTACAGCTCCTAAAGCACGAGAATGTGGTCAACCTGATTGAGATTTGTCGAACCAAAG
Seq C2 exon
CTTCACCCTATAACCGCTGCAAAGGCAGCATCTATCTGGTGTTCGACTTCTGTGAGCATGACCTCGCTGGGCTGCTGAGCAATGTCTTAGTGAAGTTCACGTTGTCTGAGATCAAGAGAGTAATGCAGATGCTGCTGAATGGCCTCTACTACATCCACAGGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022586-'3-5,'3-2,4-5=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(34.6=100)
A:
PF0006920=Pkinase=FE(10.1=100)
C2:
PF0006920=Pkinase=FE(18.5=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGGAGAATGAGAAGGAGGGG
R:
AGTAGAGGCCATTCAGCAGCA
Band lengths:
173-264
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]