Variant report

Variant	rs28661978
Chromosome Location	chr3:156579739-156579740
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs11710516	0.83[ASN][1000 genomes]
rs11717138	0.84[ASN][1000 genomes]
rs11927500	0.95[ASN][1000 genomes]
rs1430412	0.84[ASN][1000 genomes]
rs16826858	0.95[ASN][1000 genomes]
rs16826864	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16826899	0.84[ASN][1000 genomes]
rs16826906	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs171077	0.83[ASN][1000 genomes]
rs171080	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs180746	0.83[ASN][1000 genomes]
rs182936	0.83[ASN][1000 genomes]
rs237246	0.83[ASN][1000 genomes]
rs2633815	0.95[ASN][1000 genomes]
rs2874490	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2874491	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs343992	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs344023	0.83[ASN][1000 genomes]
rs344047	0.83[ASN][1000 genomes]
rs344048	0.83[ASN][1000 genomes]
rs344049	0.83[ASN][1000 genomes]
rs344050	0.83[ASN][1000 genomes]
rs344076	1.00[ASN][1000 genomes]
rs344077	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344078	1.00[ASN][1000 genomes]
rs344081	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344083	1.00[ASN][1000 genomes]
rs344085	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344086	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344088	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344089	0.90[ASN][1000 genomes]
rs344090	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344091	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs344092	0.95[ASN][1000 genomes]
rs344093	0.83[ASN][1000 genomes]
rs3796172	0.84[ASN][1000 genomes]
rs414683	0.95[ASN][1000 genomes]
rs4441614	0.84[ASN][1000 genomes]
rs4680304	0.84[ASN][1000 genomes]
rs491423	0.95[ASN][1000 genomes]
rs55850252	0.84[ASN][1000 genomes]
rs58207863	0.84[ASN][1000 genomes]
rs59244547	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441099	0.95[ASN][1000 genomes]
rs6441100	0.95[ASN][1000 genomes]
rs6441103	0.89[ASN][1000 genomes]
rs6763644	0.84[ASN][1000 genomes]
rs6774702	0.84[ASN][1000 genomes]
rs6786167	0.84[ASN][1000 genomes]
rs6787535	0.84[ASN][1000 genomes]
rs6787952	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6792917	0.84[ASN][1000 genomes]
rs6795327	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6795516	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6802042	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7426821	0.84[ASN][1000 genomes]
rs7609851	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7618306	0.84[ASN][1000 genomes]
rs7621699	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7630909	0.95[ASN][1000 genomes]
rs7635521	0.89[ASN][1000 genomes]
rs7640994	0.89[ASN][1000 genomes]
rs7650127	0.89[ASN][1000 genomes]
rs9810194	0.84[ASN][1000 genomes]
rs9841269	0.84[ASN][1000 genomes]
rs9847692	0.84[ASN][1000 genomes]
rs9861359	0.95[ASN][1000 genomes]
rs9878709	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877685	chr3:156444383-156611676	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
2	nsv829765	chr3:156568263-156718496	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156579200-156580200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr3:156579200-156580200	Weak transcription	HMEC	breast
3	chr3:156579600-156580200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:156579600-156581200	Enhancers	NHEK	skin

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