Variant report

Variant	rs3130889
Chromosome Location	chr6:28902974-28902975
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28888957..28894217-chr6:28902105..28913114,27	MCF-7	breast:
2	chr6:28888495..28894217-chr6:28898356..28904090,9	K562	blood:
3	chr6:28902768..28904401-chr6:28911497..28913979,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204713	Chromatin interaction
ENSG00000204709	Chromatin interaction

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:115)

rs_ID	r²[population]
rs1002925	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1005123	0.89[ASN][1000 genomes]
rs1237485	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1476016	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1543796	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs169683	0.86[EUR][1000 genomes]
rs1794587	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs184093	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2006173	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2013848	0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2032500	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2071785	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2071790	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs209122	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs209126	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs209128	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs209129	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs209137	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs209138	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs209148	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs209149	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs209152	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs209153	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs209160	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs209161	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs209163	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs209164	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs209171	0.85[EUR][1000 genomes]
rs209173	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs209175	0.85[EUR][1000 genomes]
rs209176	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs209179	0.86[EUR][1000 genomes]
rs209184	0.87[EUR][1000 genomes]
rs209186	0.86[EUR][1000 genomes]
rs2157312	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2157313	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2179648	0.86[ASN][1000 genomes]
rs2187807	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2187808	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2208536	0.86[EUR][1000 genomes]
rs2269555	0.89[ASN][1000 genomes]
rs2394512	0.87[ASN][1000 genomes]
rs2754764	0.86[EUR][1000 genomes]
rs2754767	0.86[EUR][1000 genomes]
rs2765218	0.85[EUR][1000 genomes]
rs2765219	0.86[EUR][1000 genomes]
rs2765229	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3129792	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3129793	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3130841	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3130842	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3130886	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3130897	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3131070	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3131074	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3131077	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3131099	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs3131100	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3131102	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3131342	0.86[EUR][1000 genomes]
rs3132371	0.82[EUR][1000 genomes]
rs3132386	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3135303	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3135315	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3135319	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3135321	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3135322	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3135323	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3135324	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3135326	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3135327	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3135328	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs377392	0.87[EUR][1000 genomes]
rs381808	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs386628	0.87[EUR][1000 genomes]
rs393431	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4427026	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4713186	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4713187	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4713188	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4713190	0.92[ASN][1000 genomes]
rs4713192	0.92[ASN][1000 genomes]
rs4947339	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs526983	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6456876	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6456880	0.91[ASN][1000 genomes]
rs6456883	0.89[ASN][1000 genomes]
rs6456891	0.84[ASN][1000 genomes]
rs6900967	0.80[ASN][1000 genomes]
rs6901599	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6904975	0.90[ASN][1000 genomes]
rs6906909	0.90[ASN][1000 genomes]
rs6914955	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6916161	0.89[ASN][1000 genomes]
rs6920392	0.92[ASN][1000 genomes]
rs6931823	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs763009	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7743189	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7755875	0.80[ASN][1000 genomes]
rs7761547	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7768299	0.87[ASN][1000 genomes]
rs9257401	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9257403	0.81[ASN][1000 genomes]
rs9257404	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9257405	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9257408	0.84[ASN][1000 genomes]
rs9257421	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9257447	0.91[ASN][1000 genomes]
rs9257449	0.91[ASN][1000 genomes]
rs9257455	0.88[ASN][1000 genomes]
rs9257461	0.89[ASN][1000 genomes]
rs9348816	0.87[ASN][1000 genomes]
rs9393939	0.87[ASN][1000 genomes]
rs9468467	0.86[ASN][1000 genomes]
rs9468472	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883518	chr6:28792477-28911802	Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
2	nsv883519	chr6:28792477-28936556	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
3	nsv427748	chr6:28831888-28999434	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
4	nsv830622	chr6:28861667-29015804	Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28901200-28906600	Weak transcription	K562	blood
2	chr6:28901800-28903200	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr6:28902000-28903000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
4	chr6:28902200-28903000	Enhancers	Primary B cells from cord blood	blood
5	chr6:28902600-28903000	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr6:28902800-28903000	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr6:28902800-28903000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
8	chr6:28902800-28903000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr6:28902800-28904600	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr6:28902800-28904600	Weak transcription	Primary T helper cells PMA-I stimulated	--

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