Variant report

Variant	rs11968615
Chromosome Location	chr6:2082060-2082061
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:2081922..2083588-chr6:2088961..2091628,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs56088586	1.00[AMR][1000 genomes]
rs56284044	1.00[AMR][1000 genomes]
rs56403345	1.00[AMR][1000 genomes]
rs56955166	1.00[AMR][1000 genomes]
rs57499788	1.00[AMR][1000 genomes]
rs57708249	1.00[AMR][1000 genomes]
rs58263056	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59887550	1.00[AMR][1000 genomes]
rs61355927	1.00[AMR][1000 genomes]
rs61635847	1.00[AMR][1000 genomes]
rs73410422	0.91[AFR][1000 genomes]
rs73410433	1.00[AMR][1000 genomes]
rs73410440	0.88[AFR][1000 genomes]
rs73412535	0.88[AFR][1000 genomes]
rs73412537	1.00[AMR][1000 genomes]
rs73412554	0.91[AFR][1000 genomes]
rs73412572	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73412576	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73412601	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73414503	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73414507	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73425506	1.00[AMR][1000 genomes]
rs73425523	1.00[AMR][1000 genomes]
rs73425536	1.00[AMR][1000 genomes]
rs73425551	1.00[AMR][1000 genomes]
rs73425558	1.00[AMR][1000 genomes]
rs73425566	1.00[AMR][1000 genomes]
rs73425572	1.00[AMR][1000 genomes]
rs73425577	1.00[AMR][1000 genomes]
rs73425600	1.00[AMR][1000 genomes]
rs73427404	1.00[AMR][1000 genomes]
rs7774602	1.00[AMR][1000 genomes]
rs7774932	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 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	nsv883386	chr6:1910108-2122454	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv981098	chr6:2008599-2102267	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv527735	chr6:2028237-2097654	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	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
8	nsv1019227	chr6:2038843-2142395	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv538097	chr6:2038843-2142395	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	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
11	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
12	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
13	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

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:2057600-2086400	Weak transcription	Aorta	Aorta
2	chr6:2062600-2086200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:2064200-2082600	Weak transcription	Stomach Mucosa	stomach
4	chr6:2064200-2094000	Weak transcription	Gastric	stomach
5	chr6:2065000-2117400	Weak transcription	Pancreas	Pancrea
6	chr6:2078800-2103800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:2079000-2108800	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:2080400-2084000	Strong transcription	HepG2	liver
9	chr6:2080800-2082600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr6:2080800-2082800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr6:2080800-2083600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr6:2081000-2108800	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:2081200-2082400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr6:2081200-2104000	Weak transcription	Primary hematopoietic stem cells	blood
15	chr6:2081200-2104200	Weak transcription	Duodenum Mucosa	Duodenum
16	chr6:2081200-2113000	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr6:2081400-2082200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr6:2081400-2082600	Flanking Active TSS	GM12878-XiMat	blood
19	chr6:2081400-2082800	Enhancers	Primary T cells from cord blood	blood
20	chr6:2081400-2082800	Enhancers	Primary T cells fromperipheralblood	blood
21	chr6:2081400-2083600	Enhancers	Dnd41	blood
22	chr6:2081600-2082600	Enhancers	Fetal Thymus	thymus
23	chr6:2081600-2082600	Enhancers	Thymus	Thymus
24	chr6:2081600-2083200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:2081600-2131800	Weak transcription	Fetal Intestine Small	intestine
26	chr6:2082000-2082800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links