BtaEX0008253 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000004695 | CDK9
Description
Bos taurus cyclin-dependent kinase 9 (CDK9), mRNA. [Source:RefSeq mRNA;Acc:NM_001014935]
Coordinates
chr11:98476026-98477230:+
Coord C1 exon
chr11:98476026-98476116
Coord A exon
chr11:98476467-98476633
Coord C2 exon
chr11:98477082-98477230
Length
167 bp
Sequences
Splice sites
3' ss Seq
CCTCATTCTTCCTGCCTCAGCTT
3' ss Score
5.97
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
Exon sequences
Seq C1 exon
TTCCCCATTACAGCATTGCGGGAGATCAAGATCCTCCAGCTTCTAAAACACGAGAATGTGGTCAACTTGATTGAGATCTGTCGAACCAAAG
Seq A exon
CTTCCCCCTATAACCGCTGCAAAGGCAGTATATACCTGGTGTTTGACTTCTGTGAGCATGATCTTGCTGGGCTGCTGAGCAACGTTTTAGTCAAGTTCACACTATCTGAGATCAAGAGGGTCATGCAGATGTTGCTTAACGGCCTCTACTACATCCATAGGAACAAG
Seq C2 exon
GGGAGCGGGACTACGGCCCCCCCATTGATCTGTGGGGTGCTGGGTGCATCATGGCGGAGATGTGGACCCGCAGCCCCATCATGCAGGGCAACACGGAGCAGCACCAACTCGCCCTCATCAGCCAGCTCTGCGGCTCCATCACCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004695_MULTIEX1-1/3=C1-3
Average complexity
C3
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(10.1=100)
A:
PF0006920=Pkinase=FE(18.5=100)
C2:
PF0006920=Pkinase=FE(16.5=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCCATTACAGCATTGCGG
R:
GGGTGATGGAGCCGCAGAG
Band lengths:
235-402
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_LEFT
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development