Variant report

Variant	rs9368938
Chromosome Location	chr6:36549752-36549753
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	chr6:36522642..36525654-chr6:36546165..36549998,4	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10214849	0.84[CEU][hapmap];0.82[CHD][hapmap];0.81[MEX][hapmap];0.86[TSI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10223366	0.82[EUR][1000 genomes]
rs1076931	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10807169	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10947613	0.83[CHD][hapmap];0.82[JPT][hapmap];0.81[MEX][hapmap];0.82[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10947614	0.82[CEU][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10947615	0.82[CEU][hapmap];0.82[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11756557	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11756969	1.00[CEU][hapmap];0.81[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap]
rs12153820	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12202732	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12208086	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12211825	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1406945	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs1812018	1.00[ASW][hapmap];1.00[CEU][hapmap];0.80[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1812019	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1812020	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2001101	0.87[EUR][1000 genomes]
rs2145048	1.00[ASW][hapmap];1.00[CEU][hapmap];0.80[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713987	0.83[EUR][1000 genomes]
rs56144242	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60627328	0.83[EUR][1000 genomes]
rs61211228	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs671516	0.80[EUR][1000 genomes]
rs6913530	0.82[CEU][hapmap];0.88[CHD][hapmap];0.96[GIH][hapmap];0.82[JPT][hapmap];0.93[MEX][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6937430	0.84[CEU][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72852338	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72852340	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73410251	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7344	0.82[CEU][hapmap];0.91[CHD][hapmap];0.96[GIH][hapmap];0.82[JPT][hapmap];0.93[MEX][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7738559	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7738561	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7741888	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7743396	0.88[CEU][hapmap];0.91[CHD][hapmap];0.96[GIH][hapmap];0.82[JPT][hapmap];0.93[MEX][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7747264	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7755461	0.87[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7759778	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7759933	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7760766	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7767296	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9296193	0.82[CEU][hapmap];0.88[CHD][hapmap];0.96[GIH][hapmap];0.82[JPT][hapmap];0.93[MEX][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9349001	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9357217	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9357218	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9357219	1.00[CEU][hapmap];0.80[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.96[LWK][hapmap];0.93[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9366907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9366908	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9366909	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9366911	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs9368939	0.86[EUR][1000 genomes]
rs9368940	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9368942	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs9368943	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9380577	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380578	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9380580	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9380582	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9394359	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9394360	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9394361	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9394362	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9394363	1.00[ASW][hapmap];1.00[CEU][hapmap];0.80[CHB][hapmap];0.97[CHD][hapmap];0.96[GIH][hapmap];0.91[JPT][hapmap];0.96[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9394365	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36535200-36551200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:36547800-36550200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:36547800-36551200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:36547800-36551200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr6:36547800-36551200	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr6:36547800-36551200	Weak transcription	Brain Anterior Caudate	brain
7	chr6:36547800-36551200	Weak transcription	Brain Hippocampus Middle	brain
8	chr6:36547800-36551200	Weak transcription	Fetal Kidney	kidney
9	chr6:36548000-36551200	Weak transcription	Primary B cells from peripheral blood	blood
10	chr6:36548000-36551200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:36548000-36551200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:36548000-36551200	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr6:36548000-36551200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:36548000-36551200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:36548000-36551200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:36548000-36551200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr6:36548000-36551200	Weak transcription	Duodenum Mucosa	Duodenum
18	chr6:36548000-36551200	Weak transcription	Fetal Intestine Large	intestine
19	chr6:36548000-36551200	Weak transcription	Fetal Thymus	thymus
20	chr6:36548000-36551200	Weak transcription	NHDF-Ad	bronchial
21	chr6:36548000-36551200	Weak transcription	NHEK	skin
22	chr6:36548000-36551200	Weak transcription	NHLF	lung
23	chr6:36548000-36553000	Weak transcription	HSMM	muscle
24	chr6:36548000-36553000	Weak transcription	HSMMtube	muscle
25	chr6:36548000-36553000	Weak transcription	NH-A	brain
26	chr6:36548200-36551200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:36548200-36551200	Weak transcription	Primary B cells from cord blood	blood
28	chr6:36548200-36551200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr6:36548200-36551200	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr6:36548200-36551200	Weak transcription	Adipose Nuclei	Adipose
31	chr6:36548200-36551200	Weak transcription	Fetal Intestine Small	intestine
32	chr6:36548200-36551200	Weak transcription	Stomach Smooth Muscle	stomach
33	chr6:36548200-36551200	Weak transcription	Osteobl	bone
34	chr6:36548200-36551400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr6:36548200-36551600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:36548200-36553000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr6:36548400-36551200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr6:36548400-36551200	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr6:36548400-36551200	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr6:36549400-36550200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr6:36549600-36549800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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