Variant report

Variant	rs2339628
Chromosome Location	chr10:52878970-52878971
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs2339673	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2339678	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2879523	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2879547	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4603249	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4935010	0.91[EUR][1000 genomes]
rs4935220	0.84[EUR][1000 genomes]
rs4935221	0.81[EUR][1000 genomes]
rs4935228	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7904024	0.91[EUR][1000 genomes]
rs9414823	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9415718	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9415721	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9415730	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831873	chr10:52710610-52899540	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1036645	chr10:52804961-53159076	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
3	nsv825378	chr10:52855771-52908439	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52876000-52879400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr10:52876600-52879400	Enhancers	NHLF	lung
3	chr10:52876800-52900400	Weak transcription	Left Ventricle	heart
4	chr10:52877400-52881800	Weak transcription	Right Atrium	heart
5	chr10:52877600-52879000	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr10:52877600-52889600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr10:52878000-52879400	Enhancers	NHDF-Ad	bronchial
8	chr10:52878600-52879800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr10:52878600-52880200	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr10:52878600-52899200	Weak transcription	Aorta	Aorta
11	chr10:52878800-52879600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr10:52878800-52880000	Weak transcription	Colon Smooth Muscle	Colon

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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