Variant report

Variant	rs6456079
Chromosome Location	chr6:166782143-166782144
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:166751783..166754110-chr6:166780871..166783189,2	K562	blood:
2	chr6:166756008..166757539-chr6:166779896..166782312,2	MCF-7	breast:
3	chr6:166755930..166757619-chr6:166781019..166784045,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198818	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1546853	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1546854	0.81[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1546855	0.92[EUR][1000 genomes]
rs1569459	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1569460	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1569461	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1977049	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1977050	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1977051	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1977052	0.93[EUR][1000 genomes]
rs1977053	0.93[EUR][1000 genomes]
rs1977054	0.93[EUR][1000 genomes]
rs1977056	0.91[EUR][1000 genomes]
rs1997661	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2179177	0.87[EUR][1000 genomes]
rs2343591	0.95[CEU][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3734605	0.91[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3757194	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3757195	0.91[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4305699	0.95[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4710043	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6456078	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456081	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6902813	0.90[ASN][1000 genomes]
rs6905635	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906844	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6912695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6918091	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6918135	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs735297	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7449594	0.80[EUR][1000 genomes]
rs7449629	0.91[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7744743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7752716	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9283865	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9295338	0.93[EUR][1000 genomes]
rs9295341	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9295342	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9295343	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9295344	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9295345	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9348123	0.91[CEU][hapmap];0.94[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9348124	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9348125	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9348126	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9355574	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9355575	0.95[CEU][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9356482	0.93[EUR][1000 genomes]
rs9356483	0.93[EUR][1000 genomes]
rs9364845	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9364846	0.89[EUR][1000 genomes]
rs9364847	0.88[EUR][1000 genomes]
rs9364848	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9366009	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9366010	0.84[EUR][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	esv3490076	chr6:166727901-167306743	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
2	esv3490077	chr6:166727901-167306743	Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
3	esv1797072	chr6:166766142-166782143	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:166773200-166794600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr6:166773400-166790000	Weak transcription	Fetal Brain Male	brain
3	chr6:166774400-166790600	Weak transcription	Psoas Muscle	Psoas
4	chr6:166774800-166783400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:166774800-166784000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:166774800-166787200	Weak transcription	Esophagus	oesophagus
7	chr6:166774800-166795000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:166775000-166793800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:166775200-166788400	Weak transcription	HMEC	breast
10	chr6:166775400-166785400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr6:166775400-166787000	Weak transcription	Fetal Kidney	kidney
12	chr6:166775800-166794800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr6:166776200-166782600	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr6:166776200-166782600	Strong transcription	Rectal Mucosa Donor 31	rectum
15	chr6:166776200-166782600	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr6:166776200-166784600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
17	chr6:166776600-166782600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr6:166777400-166795400	Weak transcription	Gastric	stomach
19	chr6:166777800-166788400	Weak transcription	NHEK	skin
20	chr6:166778200-166790600	Weak transcription	Right Ventricle	heart
21	chr6:166778200-166790800	Weak transcription	Fetal Brain Female	brain
22	chr6:166778200-166792800	Weak transcription	Aorta	Aorta
23	chr6:166778200-166794600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr6:166778200-166795000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr6:166778400-166784000	Weak transcription	Spleen	Spleen
26	chr6:166778400-166786600	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr6:166778400-166790600	Weak transcription	Pancreas	Pancrea
28	chr6:166778400-166792600	Weak transcription	Lung	lung
29	chr6:166778400-166794600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr6:166778400-166794600	Weak transcription	Fetal Intestine Small	intestine
31	chr6:166778400-166794600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr6:166778400-166794800	Weak transcription	Fetal Stomach	stomach
33	chr6:166778400-166795000	Weak transcription	Colonic Mucosa	Colon
34	chr6:166778600-166794600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr6:166778600-166794600	Weak transcription	Colon Smooth Muscle	Colon
36	chr6:166778800-166785000	Weak transcription	Placenta	Placenta
37	chr6:166779000-166783400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr6:166779200-166788400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr6:166779200-166793400	Weak transcription	K562	blood
40	chr6:166779400-166783200	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr6:166779400-166783400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr6:166779400-166794600	Weak transcription	HSMM	muscle
43	chr6:166779400-166794800	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr6:166779600-166783400	Weak transcription	Right Atrium	heart
45	chr6:166779600-166785400	Weak transcription	Fetal Muscle Leg	muscle
46	chr6:166779600-166785800	Weak transcription	Primary B cells from cord blood	blood
47	chr6:166779600-166789200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr6:166779600-166790600	Weak transcription	Left Ventricle	heart
49	chr6:166779600-166791400	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr6:166779600-166791800	Weak transcription	Brain Germinal Matrix	brain

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