Variant report

Variant	rs7627380
Chromosome Location	chr3:23346795-23346796
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:23333702..23336217-chr3:23346722..23349222,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10428163	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10510536	1.00[CEU][hapmap];0.90[CHB][hapmap];0.96[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11926494	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[ASN][1000 genomes]
rs11927173	0.87[ASN][1000 genomes]
rs13094957	0.83[CHB][hapmap];0.83[ASN][1000 genomes]
rs1495130	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1496653	0.95[CHB][hapmap];0.87[CHD][hapmap];0.85[GIH][hapmap];0.83[ASN][1000 genomes]
rs17012800	0.90[CHB][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs17012829	0.90[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17013266	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.81[ASN][1000 genomes]
rs1845899	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1908475	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[ASN][1000 genomes]
rs2017065	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.94[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2173058	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2359765	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[ASN][1000 genomes]
rs2359766	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs2359768	0.88[CEU][hapmap]
rs35352848	0.83[ASN][1000 genomes]
rs35901544	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4327332	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4340647	1.00[CEU][hapmap]
rs56979234	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57131555	0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57192920	0.81[ASN][1000 genomes]
rs57625069	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58724157	0.86[ASN][1000 genomes]
rs59687869	0.83[ASN][1000 genomes]
rs60782093	0.87[ASN][1000 genomes]
rs61578857	0.87[ASN][1000 genomes]
rs6764347	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6765801	0.87[ASN][1000 genomes]
rs6769167	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6792370	1.00[ASW][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.80[MKK][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6808488	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73821808	0.81[ASN][1000 genomes]
rs73821809	0.81[ASN][1000 genomes]
rs73823472	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7612463	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7612812	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7613185	1.00[CEU][hapmap];0.95[CHB][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7627525	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7628372	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs7641437	0.90[CHB][hapmap];0.84[CHD][hapmap];0.81[ASN][1000 genomes]
rs9866739	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9867046	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9880889	0.88[CEU][hapmap]
rs9883870	1.00[CEU][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1004417	chr3:23318797-23389422	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv967177	chr3:23337450-23350050	Weak transcription Enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23337600-23358400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr3:23343000-23347200	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:23343200-23350200	Weak transcription	Psoas Muscle	Psoas
4	chr3:23343600-23347800	Enhancers	HSMMtube	muscle
5	chr3:23343800-23355200	Weak transcription	Aorta	Aorta
6	chr3:23344400-23346800	Enhancers	Fetal Lung	lung
7	chr3:23344600-23353400	Weak transcription	Left Ventricle	heart
8	chr3:23344600-23356600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr3:23345000-23350200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:23345200-23346800	Enhancers	HSMM	muscle
11	chr3:23345200-23348000	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr3:23345400-23346800	Enhancers	NHLF	lung
13	chr3:23345400-23347000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:23345600-23346800	Enhancers	Muscle Satellite Cultured Cells	--
15	chr3:23345600-23347200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr3:23345600-23354000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:23345800-23346800	Weak transcription	Colon Smooth Muscle	Colon
18	chr3:23345800-23356400	Weak transcription	NHDF-Ad	bronchial
19	chr3:23345800-23358600	Weak transcription	Fetal Stomach	stomach
20	chr3:23346200-23347000	Enhancers	Duodenum Smooth Muscle	Duodenum
21	chr3:23346200-23347800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:23346400-23347000	Enhancers	Adipose Nuclei	Adipose
23	chr3:23346400-23347000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr3:23346400-23354400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr3:23346600-23346800	Enhancers	Fetal Kidney	kidney
26	chr3:23346600-23346800	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr3:23346600-23347400	Enhancers	Ovary	ovary

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