Variant report

Variant	rs4897267
Chromosome Location	chr6:128977085-128977086
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:128840482..128843039-chr6:128977011..128979027,2	MCF-7	breast:
2	chr6:128975771..128978222-chr6:129045702..129048467,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152894	Chromatin interaction

Extended variants
information (count: 129 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:126)

rs_ID	r²[population]
rs10485164	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11154445	0.92[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs12191852	0.84[ASN][1000 genomes]
rs12194587	0.85[ASN][1000 genomes]
rs12212602	0.80[ASN][1000 genomes]
rs1341590	0.94[EUR][1000 genomes]
rs1341593	1.00[CEU][hapmap]
rs1396299	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1396300	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1396301	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1396302	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1396303	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1396304	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1508436	0.83[ASN][1000 genomes]
rs1508437	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1508438	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1508439	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1508440	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2063207	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2064581	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2064582	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2064583	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2096099	0.84[ASN][1000 genomes]
rs2153706	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs2174934	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2202776	0.84[ASN][1000 genomes]
rs2326737	1.00[ASN][1000 genomes]
rs2326739	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2326740	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2326741	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2326742	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4457181	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs471145	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs472588	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs478551	1.00[CEU][hapmap];0.87[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs478649	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs479187	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs479357	0.99[ASN][1000 genomes]
rs479641	0.99[ASN][1000 genomes]
rs480169	0.83[ASN][1000 genomes]
rs482607	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs485179	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4895836	0.84[ASN][1000 genomes]
rs4895837	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4897270	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs497668	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs506953	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs508972	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs521638	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs525293	1.00[CEU][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs528060	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs529678	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs532291	0.99[ASN][1000 genomes]
rs542404	0.98[ASN][1000 genomes]
rs542925	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs545102	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs545332	0.83[ASN][1000 genomes]
rs546085	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs551729	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs562490	0.99[ASN][1000 genomes]
rs565485	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs565685	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs572745	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs575131	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57744071	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61613152	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62427801	1.00[ASN][1000 genomes]
rs6569540	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6569541	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6569542	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6569543	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6569544	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6569545	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6569546	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6569547	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6569548	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6569549	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6569550	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6569551	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6569552	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6899438	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6899472	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6899518	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6899718	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6899904	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6909897	0.85[CEU][hapmap]
rs6911133	1.00[ASN][1000 genomes]
rs6919812	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6919933	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6926043	0.83[ASN][1000 genomes]
rs6927434	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6927678	0.83[ASN][1000 genomes]
rs6935888	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6936447	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6937636	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6938304	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6938488	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6938701	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs699424	0.99[ASN][1000 genomes]
rs699425	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs699426	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7753787	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7757306	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7757503	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7771173	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7773822	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9321126	0.85[ASN][1000 genomes]
rs9321128	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9321129	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9372900	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9375587	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9375588	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9375589	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9385470	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9388658	0.96[JPT][hapmap];0.96[ASN][1000 genomes]
rs9398879	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9402063	0.84[ASN][1000 genomes]
rs9402064	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9402065	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9402066	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9402067	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9492031	1.00[CEU][hapmap]
rs9492049	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9492052	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs969970	0.82[ASN][1000 genomes]
rs972997	0.84[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	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv830801	chr6:128878436-129064667	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128975600-128981000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr6:128976000-128979000	Enhancers	HUVEC	blood vessel
3	chr6:128976400-128978400	Enhancers	HSMM	muscle
4	chr6:128976600-128977200	Enhancers	Fetal Heart	heart
5	chr6:128976600-128977600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:128976600-128978400	Enhancers	HMEC	breast
7	chr6:128976600-128978800	Enhancers	Osteobl	bone
8	chr6:128976800-128977200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:128976800-128977200	Flanking Active TSS	NH-A	brain
10	chr6:128976800-128977400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:128976800-128977400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
12	chr6:128976800-128977400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:128976800-128977600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:128976800-128978000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:128976800-128978000	Enhancers	Hela-S3	cervix
16	chr6:128976800-128978400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr6:128976800-128978400	Enhancers	NHLF	lung
18	chr6:128977000-128977400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr6:128977000-128977400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
20	chr6:128977000-128977400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:128977000-128977400	Enhancers	GM12878-XiMat	blood
22	chr6:128977000-128977400	Flanking Active TSS	HSMMtube	muscle
23	chr6:128977000-128977400	Flanking Active TSS	NHDF-Ad	bronchial
24	chr6:128977000-128977400	Flanking Active TSS	NHEK	skin
25	chr6:128977000-128977600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr6:128977000-128977600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr6:128977000-128977800	Enhancers	A549	lung
28	chr6:128977000-128978000	Enhancers	ES-I3 Cell Line	embryonic stem cell
29	chr6:128977000-128978000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr6:128977000-128979000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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