Variant report

Variant	rs7770852
Chromosome Location	chr6:163965174-163965175
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:163959475..163961501-chr6:163964972..163967917,2	K562	blood:
2	chr6:163889319..163891540-chr6:163964872..163967579,2	K562	blood:
3	chr6:163957772..163960340-chr6:163964403..163966144,2	MCF-7	breast:
4	chr6:163956231..163958805-chr6:163964495..163966703,2	K562	blood:
5	chr6:163964093..163966401-chr6:163969080..163970781,2	K562	blood:
6	chr6:163836950..163839312-chr6:163964461..163966264,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112531	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10080505	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11964059	0.82[MEX][hapmap]
rs12523713	1.00[CEU][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12523978	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17176494	0.92[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4112651	0.92[CEU][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs60332904	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6455905	1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes]
rs6901592	0.92[CEU][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6902608	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6906081	0.82[EUR][1000 genomes]
rs6906275	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6906725	0.92[CEU][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6910323	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs6914093	0.92[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6917030	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6928869	0.92[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6936927	0.92[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6937072	0.92[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6937097	0.92[CEU][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73013516	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73013528	0.91[AMR][1000 genomes]
rs73013553	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73015316	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7748261	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7759606	0.92[CEU][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7761090	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9456868	1.00[CEU][hapmap];0.89[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9458821	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9458823	0.83[ASW][hapmap];0.92[CEU][hapmap];0.82[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9458825	0.92[CEU][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9458827	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9458828	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9458830	0.92[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9458837	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9458846	0.90[GIH][hapmap]
rs9458849	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9458854	0.90[GIH][hapmap]
rs9458855	0.90[GIH][hapmap]
rs9458857	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9458859	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs9654569	0.92[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019551	chr6:163842358-163965216	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1017495	chr6:163856399-163981095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1027863	chr6:163934616-163965216	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1018860	chr6:163939347-164532579	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv538526	chr6:163939347-164532579	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163926600-163991800	Weak transcription	Esophagus	oesophagus
2	chr6:163940200-163983000	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr6:163949600-163975200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:163949600-163992000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:163949600-163995400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:163951000-163978800	Weak transcription	Fetal Kidney	kidney
7	chr6:163951200-163993200	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:163951600-163985800	Weak transcription	Hela-S3	cervix
9	chr6:163951800-163973400	Weak transcription	Fetal Stomach	stomach
10	chr6:163952400-163984400	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr6:163952600-163972000	Weak transcription	Primary T cells from cord blood	blood
12	chr6:163952600-163979600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:163952600-163981400	Weak transcription	Pancreas	Pancrea
14	chr6:163952600-163982800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr6:163952600-163996600	Weak transcription	Gastric	stomach
16	chr6:163954000-163968400	Weak transcription	K562	blood
17	chr6:163954000-163979400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr6:163954000-163984200	Weak transcription	Primary hematopoietic stem cells	blood
19	chr6:163954000-163984400	Weak transcription	Aorta	Aorta
20	chr6:163954000-163991600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:163954800-163984200	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr6:163955000-163979600	Weak transcription	NHEK	skin
23	chr6:163955200-163984200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr6:163955800-163983000	Weak transcription	Rectal Smooth Muscle	rectum
25	chr6:163955800-163984400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:163956000-163968400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr6:163956000-163978000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr6:163956000-163979400	Weak transcription	NHLF	lung
29	chr6:163956200-163979800	Weak transcription	NHDF-Ad	bronchial
30	chr6:163957800-163982800	Weak transcription	Placenta	Placenta
31	chr6:163957800-163983000	Weak transcription	Osteobl	bone
32	chr6:163958200-163968400	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:163958200-163972200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr6:163958200-163975000	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr6:163958200-163984600	Weak transcription	HMEC	breast
36	chr6:163958200-163991600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr6:163958400-163971400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr6:163958400-163975200	Weak transcription	Fetal Lung	lung
39	chr6:163958400-163984400	Weak transcription	Fetal Thymus	thymus
40	chr6:163958600-163980000	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr6:163958800-163966400	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr6:163958800-163970000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr6:163958800-163979600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr6:163958800-163983000	Weak transcription	NH-A	brain
45	chr6:163959000-163977800	Weak transcription	Primary B cells from peripheral blood	blood
46	chr6:163959200-163966400	Enhancers	Brain Germinal Matrix	brain
47	chr6:163959200-163968400	Weak transcription	HSMMtube	muscle
48	chr6:163959200-163968600	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr6:163959400-163968400	Weak transcription	GM12878-XiMat	blood
50	chr6:163959400-163974800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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