Variant report

Variant	rs9502966
Chromosome Location	chr6:1555810-1555811
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:1544489..1546894-chr6:1554034..1556093,2	MCF-7	breast:
2	chr6:1500696..1503622-chr6:1553281..1556067,2	MCF-7	breast:
3	chr6:1542695..1544862-chr6:1553978..1556042,2	MCF-7	breast:
4	chr6:1554542..1557319-chr6:2236589..2238217,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs57459957	0.85[ASN][1000 genomes]
rs57713879	0.82[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs61437110	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7757665	0.89[ASN][1000 genomes]
rs7757668	0.89[ASN][1000 genomes]
rs9501737	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs9501738	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs9501739	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs9501740	0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs9502965	0.81[ASN][1000 genomes]
rs9502967	0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs9502970	0.90[ASN][1000 genomes]
rs9502971	0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024111	chr6:1231850-1730146	Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv1021924	chr6:1254891-1736995	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv538082	chr6:1254891-1736995	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv917248	chr6:1365437-1627813	Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv1034039	chr6:1427061-1691837	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	nsv538088	chr6:1427061-1691837	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	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
8	nsv1027393	chr6:1446300-1692019	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv538089	chr6:1446300-1692019	Bivalent Enhancer Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
10	nsv883374	chr6:1454334-1558449	Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv1016859	chr6:1460020-1645819	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
12	nsv883375	chr6:1478613-1558449	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv883376	chr6:1535043-1635082	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
14	nsv883377	chr6:1552705-1583600	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1554400-1556000	Active TSS	Stomach Smooth Muscle	stomach
2	chr6:1554400-1556000	Active TSS	A549	lung
3	chr6:1554600-1556000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:1554600-1556000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr6:1554600-1556000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr6:1554600-1556000	Active TSS	Aorta	Aorta
7	chr6:1554600-1556000	Active TSS	Colonic Mucosa	Colon
8	chr6:1554600-1556000	Active TSS	Duodenum Smooth Muscle	Duodenum
9	chr6:1554600-1556000	Active TSS	Psoas Muscle	Psoas
10	chr6:1554600-1556000	Active TSS	Right Ventricle	heart
11	chr6:1554600-1556000	Active TSS	HSMM	muscle
12	chr6:1554800-1556000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
13	chr6:1554800-1556000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:1554800-1556000	Bivalent/Poised TSS	Fetal Adrenal Gland	Adrenal Gland
15	chr6:1554800-1556000	Active TSS	Ovary	ovary
16	chr6:1554800-1556000	Active TSS	NHLF	lung
17	chr6:1555000-1556000	Active TSS	Muscle Satellite Cultured Cells	--
18	chr6:1555000-1556000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr6:1555000-1556000	Active TSS	Duodenum Mucosa	Duodenum
20	chr6:1555200-1556000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr6:1555200-1556000	Active TSS	Primary T regulatory cells fromperipheralblood	blood
22	chr6:1555200-1556000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:1555200-1556000	Active TSS	Fetal Brain Female	brain
24	chr6:1555400-1556000	Bivalent/Poised TSS	Primary T cells from cord blood	blood
25	chr6:1555400-1556000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr6:1555400-1556000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr6:1555600-1556000	Flanking Active TSS	NHEK	skin
28	chr6:1555600-1556000	Flanking Active TSS	Osteobl	bone
29	chr6:1555600-1561000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr6:1555800-1556000	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr6:1555800-1556000	Bivalent Enhancer	Primary B cells from peripheral blood	blood
32	chr6:1555800-1556000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
33	chr6:1555800-1556000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr6:1555800-1556000	Enhancers	Primary T helper cells PMA-I stimulated	--
35	chr6:1555800-1556000	Enhancers	Primary T helper cells fromperipheralblood	blood
36	chr6:1555800-1556000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
37	chr6:1555800-1556000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr6:1555800-1556000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr6:1555800-1556000	Active TSS	Adipose Nuclei	Adipose
40	chr6:1555800-1556000	Flanking Active TSS	Brain Angular Gyrus	brain
41	chr6:1555800-1556000	Flanking Active TSS	Brain Germinal Matrix	brain
42	chr6:1555800-1556000	Enhancers	Brain Inferior Temporal Lobe	brain
43	chr6:1555800-1556000	Enhancers	Brain Substantia Nigra	brain
44	chr6:1555800-1556000	Enhancers	Fetal Brain Male	brain
45	chr6:1555800-1556000	Enhancers	Fetal Muscle Leg	muscle
46	chr6:1555800-1556000	Enhancers	Placenta	Placenta
47	chr6:1555800-1556000	Bivalent Enhancer	Fetal Stomach	stomach
48	chr6:1555800-1556000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
49	chr6:1555800-1556000	Active TSS	Skeletal Muscle Female	skeletal muscle
50	chr6:1555800-1556000	Active TSS	Hela-S3	cervix

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