Variant report

Variant	rs9404031
Chromosome Location	chr6:101211298-101211299
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:101209490..101212282-chr6:101220701..101222580,2	MCF-7	breast:
2	chr6:101209793..101211666-chr6:101212559..101214654,2	MCF-7	breast:

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs1039033	0.83[EUR][1000 genomes]
rs1099916	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11155661	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11755579	0.88[CHB][hapmap]
rs11756783	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11758174	0.88[CHB][hapmap];1.00[YRI][hapmap]
rs11758891	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11759127	1.00[YRI][hapmap]
rs11967951	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12174806	0.83[ASN][1000 genomes]
rs12175456	0.83[ASN][1000 genomes]
rs12202621	0.83[ASN][1000 genomes]
rs12215909	0.81[EUR][1000 genomes]
rs12525128	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12525818	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12526352	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12528607	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13201267	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13217436	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1414734	0.80[EUR][1000 genomes]
rs17190683	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17794439	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1813223	0.88[CHB][hapmap];1.00[YRI][hapmap]
rs2004276	1.00[YRI][hapmap]
rs2050549	0.83[ASN][1000 genomes]
rs2101814	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2134044	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2398247	1.00[YRI][hapmap]
rs3811078	0.82[JPT][hapmap]
rs3818233	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4463266	0.83[ASN][1000 genomes]
rs4840153	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4840154	0.83[ASN][1000 genomes]
rs4840157	0.81[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap]
rs62422070	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6570969	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6570970	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6905113	0.83[ASN][1000 genomes]
rs6917195	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6919283	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6925316	0.83[ASN][1000 genomes]
rs6927598	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6937520	0.81[EUR][1000 genomes]
rs705586	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs723742	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs723743	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7746961	0.83[ASN][1000 genomes]
rs7754085	0.81[ASN][1000 genomes]
rs7759463	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9322173	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9322181	0.83[ASN][1000 genomes]
rs9322182	0.83[ASN][1000 genomes]
rs9322183	0.83[ASN][1000 genomes]
rs9322212	0.82[JPT][hapmap]
rs9322216	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9373571	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9373574	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9373590	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9377085	0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs9377193	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9377214	0.83[ASN][1000 genomes]
rs9377232	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9377234	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9377235	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9377241	0.87[CHB][hapmap]
rs9386250	0.83[ASN][1000 genomes]
rs9390502	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9390626	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9390675	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390679	0.83[ASN][1000 genomes]
rs9390681	0.83[ASN][1000 genomes]
rs9390682	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390685	0.81[ASN][1000 genomes]
rs9390693	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9390695	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9390698	0.81[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap]
rs9399641	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9399656	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9399685	0.83[ASN][1000 genomes]
rs9399688	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403962	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9404022	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9404033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9404045	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs964223	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs979122	0.94[CHB][hapmap];0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949535	chr6:100740293-101469052	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv886445	chr6:101004751-101240763	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv886456	chr6:101049108-101277926	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1020692	chr6:101136992-101426071	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv604275	chr6:101158950-101277926	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv886457	chr6:101158950-101487473	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
7	nsv1016353	chr6:101172705-101304041	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv1020400	chr6:101172705-101981665	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
9	nsv538390	chr6:101172705-101981665	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
10	nsv1024526	chr6:101192726-101241291	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:101177000-101211600	Weak transcription	NHDF-Ad	bronchial
2	chr6:101182200-101214400	Weak transcription	A549	lung
3	chr6:101184400-101304600	Weak transcription	Hela-S3	cervix
4	chr6:101185400-101212600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr6:101188400-101211400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr6:101190200-101211600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:101190600-101212600	Weak transcription	HSMMtube	muscle
8	chr6:101190800-101216200	Weak transcription	Stomach Mucosa	stomach
9	chr6:101190800-101217400	Weak transcription	NHLF	lung
10	chr6:101191000-101211400	Weak transcription	Fetal Thymus	thymus
11	chr6:101191200-101211400	Weak transcription	Adipose Nuclei	Adipose
12	chr6:101191200-101211600	Weak transcription	Fetal Muscle Trunk	muscle
13	chr6:101191200-101211600	Weak transcription	HepG2	liver
14	chr6:101191200-101211800	Weak transcription	Placenta	Placenta
15	chr6:101191400-101211400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:101191400-101211400	Weak transcription	Thymus	Thymus
17	chr6:101191400-101211400	Weak transcription	NHEK	skin
18	chr6:101191400-101211600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:101191400-101212600	Weak transcription	Gastric	stomach
20	chr6:101191400-101213000	Weak transcription	HMEC	breast
21	chr6:101191400-101217600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:101191400-101277000	Weak transcription	Esophagus	oesophagus
23	chr6:101192400-101211400	Weak transcription	HUVEC	blood vessel
24	chr6:101195400-101211600	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr6:101198600-101211400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr6:101199000-101211400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr6:101199800-101211600	Weak transcription	Small Intestine	intestine
28	chr6:101200200-101211600	Weak transcription	Brain Substantia Nigra	brain
29	chr6:101201400-101211600	Weak transcription	Brain Hippocampus Middle	brain
30	chr6:101202000-101211600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr6:101202800-101215400	Weak transcription	Colonic Mucosa	Colon
32	chr6:101204800-101215200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr6:101205000-101211600	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr6:101205600-101212600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr6:101205600-101215200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr6:101205800-101211400	Strong transcription	Primary B cells from cord blood	blood
37	chr6:101206200-101215400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr6:101206400-101215200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr6:101206600-101211600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr6:101206600-101213600	Weak transcription	Fetal Kidney	kidney
41	chr6:101207200-101215200	Strong transcription	Primary T cells fromperipheralblood	blood
42	chr6:101207600-101217000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr6:101207800-101211400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr6:101207800-101211600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr6:101208200-101211600	Strong transcription	Primary T helper cells fromperipheralblood	blood
46	chr6:101208200-101215200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:101208200-101215400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:101208400-101213800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr6:101208400-101221400	Weak transcription	Colon Smooth Muscle	Colon
50	chr6:101208600-101211400	Weak transcription	Brain Angular Gyrus	brain

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