HsaEX6063130 @ hg19
Exon Skipping
Gene
ENSG00000136807 | CDK9
Description
cyclin-dependent kinase 9 [Source:HGNC Symbol;Acc:1780]
Coordinates
chr9:130549797-130550664:+
Coord C1 exon
chr9:130549797-130549887
Coord A exon
chr9:130550226-130550392
Coord C2 exon
chr9:130550493-130550664
Length
167 bp
Sequences
Splice sites
3' ss Seq
TCTTTCTATTCCTGCCTCAGCTT
3' ss Score
6.41
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
Exon sequences
Seq C1 exon
TTCCCCATTACAGCCTTGCGGGAGATCAAGATCCTTCAGCTTCTAAAACACGAGAATGTGGTCAACTTGATTGAGATTTGTCGAACCAAAG
Seq A exon
CTTCCCCCTATAACCGCTGCAAGGGTAGTATATACCTGGTGTTCGACTTCTGCGAGCATGACCTTGCTGGGCTGTTGAGCAATGTTTTGGTCAAGTTCACGCTGTCTGAGATCAAGAGGGTGATGCAGATGCTGCTTAACGGCCTCTACTACATCCACAGAAACAAG
Seq C2 exon
ATCCTGCATAGGGACATGAAGGCTGCTAATGTGCTTATCACTCGTGATGGGGTCCTGAAGCTGGCAGACTTTGGGCTGGCCCGGGCCTTCAGCCTGGCCAAGAACAGCCAGCCCAACCGCTACACCAACCGTGTGGTGACACTCTGGTACCGGCCCCCGGAGCTGTTGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136807-'3-7,'3-6,5-7=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=PD(30.5=90.0)
A:
PF0006920=Pkinase=FE(18.5=100)
C2:
PF0006920=Pkinase=FE(19.2=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCCATTACAGCCTTGCG
R:
CGGTACCAGAGTGTCACCACA
Band lengths:
243-410
Functional annotations
There are 1 annotated functions for this event
PMID: 23140174
This event
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
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)