Variant report

Variant	rs1569460
Chromosome Location	chr6:166794736-166794737
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:166794615-166795488	MCF10A-Er-Src	breast:	n/a	n/a
2	ZNF384	chr6:166794539-166795778	K562	blood:	n/a	n/a
3	JUND	chr6:166794646-166795669	K562	blood:	n/a	n/a
4	RAD21	chr6:166794560-166795848	SK-N-SH	brain:	n/a	chr6:166795473-166795487
5	TBL1XR1	chr6:166794518-166795587	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:166753320..166757958-chr6:166794622..166799153,8	K562	blood:
2	chr6:166743072..166748840-chr6:166793771..166798653,8	K562	blood:
3	chr6:166750705..166753304-chr6:166793796..166795469,2	K562	blood:
4	chr6:166751804..166757558-chr6:166793969..166799153,5	K562	blood:
5	chr6:166383156..166385383-chr6:166793262..166795662,2	K562	blood:

Variant related genes	Relation type
ENSG00000261420	TF binding region
ENSG00000233231	Chromatin interaction
ENSG00000198818	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1546853	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1546854	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1546855	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1569459	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1569461	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1977049	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1977050	0.94[EUR][1000 genomes]
rs1977051	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1977052	0.94[EUR][1000 genomes]
rs1977053	0.93[EUR][1000 genomes]
rs1977054	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1977056	0.94[EUR][1000 genomes]
rs1997661	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2179177	0.89[EUR][1000 genomes]
rs2343591	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3734605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3757194	1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3757195	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4305699	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4710043	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6456078	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456079	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]
rs6456081	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6902813	0.90[ASN][1000 genomes]
rs6905635	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906844	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6912695	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6918091	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6918135	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs735297	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7449629	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7744743	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7752716	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9283865	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9295338	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9295341	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9295342	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9295343	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9295344	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9295345	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9348123	0.95[CEU][hapmap];0.94[EUR][1000 genomes]
rs9348124	0.82[AMR][1000 genomes];0.95[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];0.94[EUR][1000 genomes]
rs9355574	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9355575	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs9356482	0.94[EUR][1000 genomes]
rs9356483	0.93[EUR][1000 genomes]
rs9364845	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9364846	0.90[EUR][1000 genomes]
rs9364847	0.90[EUR][1000 genomes]
rs9364848	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9366009	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9366010	0.86[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	esv3376653	chr6:166783590-166798116	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:166774800-166795000	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr6:166775800-166794800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr6:166777400-166795400	Weak transcription	Gastric	stomach
4	chr6:166778200-166795000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:166778400-166794800	Weak transcription	Fetal Stomach	stomach
6	chr6:166778400-166795000	Weak transcription	Colonic Mucosa	Colon
7	chr6:166779400-166794800	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr6:166779600-166794800	Weak transcription	Fetal Intestine Large	intestine
9	chr6:166780600-166794800	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr6:166780600-166795400	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr6:166782600-166794800	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr6:166782600-166794800	Weak transcription	Fetal Thymus	thymus
13	chr6:166782600-166795000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:166783800-166794800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:166789000-166794800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr6:166791000-166795200	Weak transcription	Left Ventricle	heart
17	chr6:166792400-166794800	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr6:166793000-166795400	Weak transcription	Lung	lung
19	chr6:166793200-166794800	Enhancers	Stomach Mucosa	stomach
20	chr6:166793600-166795000	Weak transcription	Aorta	Aorta
21	chr6:166793600-166795000	Weak transcription	Ovary	ovary
22	chr6:166793800-166794800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr6:166793800-166795000	Weak transcription	HUVEC	blood vessel
24	chr6:166794200-166795200	Flanking Active TSS	Liver	Liver
25	chr6:166794400-166794800	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr6:166794400-166794800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr6:166794400-166794800	Enhancers	Fetal Brain Female	brain
28	chr6:166794400-166795000	Flanking Active TSS	Dnd41	blood
29	chr6:166794400-166795200	Enhancers	Fetal Brain Male	brain
30	chr6:166794400-166795400	Weak transcription	Pancreas	Pancrea
31	chr6:166794400-166795600	Active TSS	HepG2	liver
32	chr6:166794400-166796400	Active TSS	Right Atrium	heart
33	chr6:166794400-166797600	Active TSS	GM12878-XiMat	blood
34	chr6:166794400-166797800	Active TSS	ES-I3 Cell Line	embryonic stem cell
35	chr6:166794400-166798000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr6:166794600-166794800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
37	chr6:166794600-166794800	Enhancers	iPS-15b Cell Line	embryonic stem cell
38	chr6:166794600-166794800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
39	chr6:166794600-166794800	Active TSS	Primary B cells from cord blood	blood
40	chr6:166794600-166794800	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
41	chr6:166794600-166794800	Enhancers	Primary T helper naive cells from peripheral blood	blood
42	chr6:166794600-166794800	Enhancers	Primary T helper cells PMA-I stimulated	--
43	chr6:166794600-166794800	Enhancers	Primary T helper cells fromperipheralblood	blood
44	chr6:166794600-166794800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr6:166794600-166794800	Flanking Active TSS	Brain Anterior Caudate	brain
46	chr6:166794600-166794800	Enhancers	Brain Hippocampus Middle	brain
47	chr6:166794600-166794800	Flanking Active TSS	Duodenum Mucosa	Duodenum
48	chr6:166794600-166794800	Flanking Active TSS	Fetal Heart	heart
49	chr6:166794600-166794800	Enhancers	Fetal Intestine Small	intestine
50	chr6:166794600-166794800	Enhancers	Fetal Kidney	kidney

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