Variant report

Variant	rs16895070
Chromosome Location	chr6:29521557-29521558
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	chr6:29520442..29521980-chr6:29599358..29601313,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11970406	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11970429	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11970475	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16895067	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17184255	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2076484	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2076486	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2076487	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2272991	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2294744	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2294746	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs362531	0.85[ASN][1000 genomes]
rs362532	0.85[ASN][1000 genomes]
rs57241384	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59731351	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59802757	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs64036	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6456964	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6913746	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6915177	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73402729	0.87[EUR][1000 genomes]
rs73402731	0.81[EUR][1000 genomes]
rs73402733	0.87[EUR][1000 genomes]
rs73402788	0.80[ASN][1000 genomes]
rs7757931	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9461536	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9461538	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9468551	0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9501677	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29520400-29522000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
2	chr6:29520600-29521600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
3	chr6:29520600-29521600	Flanking Bivalent TSS/Enh	Primary T killer naive cells fromperipheralblood	blood
4	chr6:29520600-29521600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr6:29520600-29521600	Active TSS	Brain Angular Gyrus	brain
6	chr6:29520600-29521600	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum
7	chr6:29520600-29521600	Active TSS	Rectal Smooth Muscle	rectum
8	chr6:29520600-29521800	Flanking Bivalent TSS/Enh	Primary B cells from peripheral blood	blood
9	chr6:29520600-29521800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
10	chr6:29520600-29521800	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
11	chr6:29520600-29521800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
12	chr6:29520600-29521800	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
13	chr6:29520600-29521800	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
14	chr6:29520600-29521800	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
15	chr6:29520600-29522000	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
16	chr6:29520600-29522000	Bivalent Enhancer	Stomach Mucosa	stomach
17	chr6:29520600-29522000	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
18	chr6:29520600-29522200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
19	chr6:29520600-29522200	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
20	chr6:29520600-29522200	Bivalent Enhancer	Fetal Stomach	stomach
21	chr6:29520600-29522200	Bivalent Enhancer	Fetal Thymus	thymus
22	chr6:29520800-29521800	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
23	chr6:29520800-29521800	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
24	chr6:29520800-29521800	Bivalent Enhancer	Fetal Brain Male	brain
25	chr6:29520800-29521800	Bivalent/Poised TSS	Pancreatic Islets	Pancreatic Islet
26	chr6:29520800-29521800	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
27	chr6:29520800-29522000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
28	chr6:29520800-29522000	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
29	chr6:29520800-29522000	Flanking Bivalent TSS/Enh	Primary T helper cells PMA-I stimulated	--
30	chr6:29521000-29521600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
31	chr6:29521000-29521600	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
32	chr6:29521000-29521600	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
33	chr6:29521000-29521600	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr6:29521000-29521600	Flanking Bivalent TSS/Enh	Left Ventricle	heart
35	chr6:29521000-29521600	Flanking Active TSS	Lung	lung
36	chr6:29521000-29521600	Flanking Active TSS	Right Atrium	heart
37	chr6:29521000-29521600	Flanking Active TSS	Spleen	Spleen
38	chr6:29521000-29521600	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
39	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	Primary T cells from cord blood	blood
41	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells short term culture	blood
42	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	Brain Cingulate Gyrus	brain
48	chr6:29521000-29521800	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
49	chr6:29521000-29521800	Flanking Active TSS	Esophagus	oesophagus
50	chr6:29521000-29521800	Bivalent/Poised TSS	Fetal Brain Female	brain

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