Variant report

Variant	rs3805876
Chromosome Location	chr6:81031539-81031540
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10080237	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs1015158	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs10455370	0.87[CEU][hapmap];0.84[CHB][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10733162	0.96[ASN][1000 genomes]
rs10806185	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs10943696	0.95[CHB][hapmap];0.87[JPT][hapmap]
rs10943699	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12215236	0.89[ASN][1000 genomes]
rs1324120	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1324123	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs1474791	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1535075	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1984242	0.88[CEU][hapmap];0.80[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2179842	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2223873	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2223875	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2322631	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs2322748	0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs2322753	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2322765	0.80[EUR][1000 genomes]
rs2874829	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs3793000	0.93[ASN][1000 genomes]
rs3805859	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3805869	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3805877	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3805885	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs3805907	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs3805922	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs3805926	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs3812121	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs3812126	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs3828754	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs4706117	0.84[EUR][1000 genomes]
rs4706831	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4706834	1.00[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs4706840	0.81[EUR][1000 genomes]
rs4706841	0.81[EUR][1000 genomes]
rs585142	0.87[ASN][1000 genomes]
rs627240	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs638056	1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs6907729	1.00[CHB][hapmap];0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs6916405	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs6918172	0.95[ASN][1000 genomes]
rs6930534	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs7762895	0.82[EUR][1000 genomes]
rs7771449	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs910266	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs9294171	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs9294173	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9341810	0.89[ASN][1000 genomes]
rs9341811	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9343971	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs9343978	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9350847	0.84[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap]
rs9350851	0.81[EUR][1000 genomes]
rs9352803	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs9352806	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9352809	1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs9352812	0.89[ASN][1000 genomes]
rs9352817	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9352826	0.81[EUR][1000 genomes]
rs9361599	0.86[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9361600	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9448898	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs9448899	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs978814	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][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	nsv1034096	chr6:80856135-81150170	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv932996	chr6:80880896-81134991	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv497995	chr6:80883701-81134991	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:81005200-81056200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:81015600-81036400	Weak transcription	Ovary	ovary
3	chr6:81015600-81037400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr6:81026800-81037400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:81027000-81044600	Weak transcription	Aorta	Aorta
6	chr6:81029400-81038200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:81029400-81038600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:81029400-81079600	Weak transcription	HSMM	muscle

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