Variant report

Variant	rs9503113
Chromosome Location	chr6:2168338-2168339
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	chr6:2165147..2167469-chr6:2167871..2169447,2	MCF-7	breast:
2	chr6:2159025..2161764-chr6:2166698..2168603,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf195-20	chr6:2167900-2168389	NONHSAT106610

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11963303	0.84[ASW][hapmap];1.00[MEX][hapmap]
rs11968679	0.84[ASW][hapmap];1.00[MEX][hapmap]
rs13437278	0.84[ASW][hapmap];1.00[MEX][hapmap]
rs7761650	0.98[AFR][1000 genomes]
rs7770058	0.89[AFR][1000 genomes]
rs9501811	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs9503100	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs9503105	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs9503115	0.96[AFR][1000 genomes]
rs9503116	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs9503119	0.96[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv931941	chr6:1768439-2246781	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv531295	chr6:1773436-2724986	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
4	nsv522608	chr6:2032259-2203888	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1025814	chr6:2064629-2308518	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS 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	46 gene(s)	inside rSNPs	diseases
6	nsv538098	chr6:2064629-2308518	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
7	nsv1030181	chr6:2071210-2308657	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
8	nsv538099	chr6:2071210-2308657	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
9	nsv883387	chr6:2086679-2176239	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv883388	chr6:2093432-2514911	Strong transcription Enhancers ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
11	nsv883389	chr6:2093432-2776303	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	87 gene(s)	inside rSNPs	diseases
12	nsv830573	chr6:2120985-2263646	Bivalent Enhancer Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers 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

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:2163400-2168400	Weak transcription	HSMMtube	muscle
2	chr6:2163600-2176800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:2164200-2168400	Weak transcription	Gastric	stomach
4	chr6:2165400-2169200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr6:2165800-2168400	Weak transcription	HSMM	muscle
6	chr6:2165800-2174000	Weak transcription	Primary T cells from cord blood	blood
7	chr6:2166400-2171600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr6:2166400-2185400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:2166800-2168800	Enhancers	Sigmoid Colon	Sigmoid Colon
10	chr6:2166800-2169000	Enhancers	A549	lung
11	chr6:2166800-2169200	Enhancers	HepG2	liver
12	chr6:2167000-2168600	Enhancers	Esophagus	oesophagus
13	chr6:2167000-2168600	Enhancers	Stomach Mucosa	stomach
14	chr6:2167000-2168800	Enhancers	GM12878-XiMat	blood
15	chr6:2167000-2168800	Enhancers	Hela-S3	cervix
16	chr6:2167000-2169200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:2167000-2169800	Enhancers	Osteobl	bone
18	chr6:2167200-2169400	Enhancers	NHLF	lung
19	chr6:2167400-2168600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr6:2167800-2168600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:2167800-2168600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr6:2167800-2168600	Enhancers	Pancreas	Pancrea
23	chr6:2167800-2168800	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr6:2167800-2168800	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr6:2168200-2168600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr6:2168200-2168600	Enhancers	Aorta	Aorta
27	chr6:2168200-2168800	Enhancers	Small Intestine	intestine
28	chr6:2168200-2169000	Enhancers	HUES48 Cell Line	embryonic stem cell
29	chr6:2168200-2169400	Enhancers	Adipose Nuclei	Adipose
30	chr6:2168200-2169400	Enhancers	NHDF-Ad	bronchial
31	chr6:2168200-2169600	Enhancers	Muscle Satellite Cultured Cells	--
32	chr6:2168200-2169800	Enhancers	NH-A	brain

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