Variant report

Variant	rs9373843
Chromosome Location	chr6:106754429-106754430
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	chr6:106752268..106754671-chr6:106754790..106756847,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10484577	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11752888	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1322178	0.94[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2299864	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34582442	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34599047	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3804329	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3804333	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3804335	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs3827644	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3851210	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs62422862	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62422878	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62422881	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62422886	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7763652	0.90[EUR][1000 genomes]
rs9372120	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9372121	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9373839	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9373842	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9373846	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9386514	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9386516	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9398073	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9398075	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9398078	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9399980	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1025900	chr6:106529777-106898421	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1018270	chr6:106531658-106908606	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv538399	chr6:106531658-106908606	Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1035110	chr6:106557281-106802212	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv538400	chr6:106557281-106802212	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
7	nsv1022855	chr6:106570926-106802072	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv538401	chr6:106570926-106802072	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
9	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
10	nsv1025963	chr6:106593639-106848778	Strong transcription Bivalent Enhancer Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
11	nsv1020047	chr6:106597828-106912047	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
12	nsv970664	chr6:106635267-106887670	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
13	nsv1030367	chr6:106667748-106802072	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
14	nsv538403	chr6:106667748-106802072	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
15	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
16	esv3348862	chr6:106754383-106754568	Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106699200-106767400	Weak transcription	Stomach Mucosa	stomach
2	chr6:106711600-106762800	Weak transcription	Pancreas	Pancrea
3	chr6:106711600-106762800	Weak transcription	Right Ventricle	heart
4	chr6:106718000-106771600	Weak transcription	Fetal Brain Female	brain
5	chr6:106720600-106760400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr6:106723000-106771800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:106727400-106762200	Weak transcription	Ovary	ovary
8	chr6:106727600-106760800	Weak transcription	Brain Hippocampus Middle	brain
9	chr6:106734800-106762800	Weak transcription	Gastric	stomach
10	chr6:106734800-106771800	Weak transcription	Esophagus	oesophagus
11	chr6:106735200-106773000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:106738200-106761400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr6:106739600-106760600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:106739800-106762800	Weak transcription	Lung	lung
15	chr6:106740000-106756600	Weak transcription	Hela-S3	cervix
16	chr6:106740000-106757000	Weak transcription	Fetal Heart	heart
17	chr6:106740000-106760000	Weak transcription	Fetal Kidney	kidney
18	chr6:106740000-106771400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr6:106740000-106773000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:106740200-106755800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:106740200-106757000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr6:106740200-106757800	Weak transcription	Aorta	Aorta
23	chr6:106740200-106759000	Weak transcription	Adipose Nuclei	Adipose
24	chr6:106740200-106759000	Weak transcription	NHLF	lung
25	chr6:106740200-106760800	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr6:106740200-106761000	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr6:106740200-106761400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:106740200-106761600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr6:106740200-106761800	Weak transcription	Fetal Stomach	stomach
30	chr6:106740200-106762000	Weak transcription	Fetal Muscle Leg	muscle
31	chr6:106740200-106762200	Weak transcription	Thymus	Thymus
32	chr6:106740200-106771400	Weak transcription	Small Intestine	intestine
33	chr6:106740400-106756800	Weak transcription	HUVEC	blood vessel
34	chr6:106740400-106757200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr6:106740400-106759200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr6:106740400-106759200	Weak transcription	Psoas Muscle	Psoas
37	chr6:106740400-106759400	Weak transcription	Left Ventricle	heart
38	chr6:106740400-106760600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr6:106740400-106760600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr6:106740400-106762200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr6:106740600-106756800	Weak transcription	NH-A	brain
42	chr6:106740600-106760800	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr6:106740800-106758200	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr6:106740800-106759200	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr6:106740800-106760400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr6:106740800-106760600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr6:106741000-106754600	Weak transcription	Fetal Thymus	thymus
48	chr6:106741000-106754800	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr6:106741000-106755600	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr6:106741000-106757800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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