Variant report

Variant	rs7738560
Chromosome Location	chr6:11366589-11366590
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:11363261..11366684-chr6:11366769..11368460,3	MCF-7	breast:
2	chr6:11219669..11221481-chr6:11366413..11368482,2	MCF-7	breast:
3	chr6:11355836..11357922-chr6:11365325..11366984,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1012502	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1013678	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10947204	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12193099	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12199545	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12204242	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12208626	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12210644	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12215372	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12215715	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12215894	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13198555	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13217274	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1810451	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2179178	0.82[AMR][1000 genomes]
rs3798752	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4276494	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4533978	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4632886	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4711271	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711272	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916534	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6932496	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7768351	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9348868	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357127	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9461714	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9469034	0.92[AMR][1000 genomes];0.94[EUR][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	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11355000-11367400	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr6:11355200-11370800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:11357200-11371200	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr6:11357600-11367600	Weak transcription	Aorta	Aorta
5	chr6:11357800-11366600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr6:11357800-11370400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr6:11358000-11367800	Weak transcription	Small Intestine	intestine
8	chr6:11358200-11367400	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr6:11358800-11367000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr6:11359400-11369800	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:11360200-11366800	Weak transcription	Duodenum Mucosa	Duodenum
12	chr6:11361200-11366800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr6:11361200-11370600	Weak transcription	Thymus	Thymus
14	chr6:11361600-11367200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr6:11362800-11366800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr6:11363800-11367400	Enhancers	HepG2	liver
17	chr6:11364200-11366800	Enhancers	Primary neutrophils fromperipheralblood	blood
18	chr6:11364600-11366800	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr6:11364600-11369400	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr6:11364600-11371200	Enhancers	HUVEC	blood vessel
21	chr6:11364600-11381200	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr6:11364800-11370400	Weak transcription	Spleen	Spleen
23	chr6:11364800-11370800	Weak transcription	Placenta	Placenta
24	chr6:11365000-11366800	Weak transcription	NHEK	skin
25	chr6:11365000-11370600	Weak transcription	Fetal Thymus	thymus
26	chr6:11365200-11366800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr6:11365200-11367000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:11365200-11367000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr6:11365400-11366600	Enhancers	Monocytes-CD14+_RO01746	blood
30	chr6:11365400-11366800	Weak transcription	Primary T cells from cord blood	blood
31	chr6:11365400-11367000	Enhancers	Skeletal Muscle Male	skeletal muscle
32	chr6:11365400-11367200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:11365400-11368000	Weak transcription	Right Atrium	heart
34	chr6:11365600-11366800	Weak transcription	HMEC	breast
35	chr6:11365600-11367200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:11365600-11374400	Weak transcription	Stomach Mucosa	stomach
37	chr6:11365600-11374800	Weak transcription	Primary hematopoietic stem cells	blood
38	chr6:11365800-11366600	Enhancers	GM12878-XiMat	blood
39	chr6:11365800-11366800	Weak transcription	Fetal Kidney	kidney
40	chr6:11365800-11366800	Weak transcription	A549	lung
41	chr6:11365800-11367000	Enhancers	Left Ventricle	heart
42	chr6:11365800-11367200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr6:11365800-11367400	Enhancers	Lung	lung
44	chr6:11365800-11369800	Weak transcription	Fetal Lung	lung
45	chr6:11366000-11366600	Strong transcription	Primary B cells from cord blood	blood
46	chr6:11366000-11367400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:11366000-11367800	Weak transcription	Placenta Amnion	Placenta Amnion
48	chr6:11366000-11368400	Genic enhancers	Primary B cells from peripheral blood	blood
49	chr6:11366000-11368400	Enhancers	Primary T cells fromperipheralblood	blood
50	chr6:11366200-11366600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links