Variant report

Variant	rs12584534
Chromosome Location	chr13:95755550-95755551
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:95752245..95755943-chr13:95774951..95780273,6	MCF-7	breast:
2	chr13:95751490..95755868-chr13:95765298..95769920,8	MCF-7	breast:
3	chr13:95753163..95755993-chr13:95781109..95783183,3	MCF-7	breast:
4	chr13:95752693..95755831-chr13:95780565..95782684,3	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1080482	0.84[CHB][hapmap]
rs12853981	0.85[CHB][hapmap]
rs12868708	0.85[CHB][hapmap]
rs1617785	0.95[CHB][hapmap];0.86[CHD][hapmap];0.80[ASN][1000 genomes]
rs1628382	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1630807	0.95[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1678352	0.82[ASN][1000 genomes]
rs1678354	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs1678363	0.90[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1729759	0.95[CHB][hapmap];0.86[CHD][hapmap];0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs1729760	0.82[ASN][1000 genomes]
rs1729775	0.90[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17300696	0.85[CHB][hapmap]
rs1751059	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1751062	0.85[ASN][1000 genomes]
rs2274401	0.85[CHB][hapmap]
rs35074427	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3782944	0.85[CHB][hapmap]
rs3782945	0.85[CHB][hapmap]
rs3782946	0.85[CHB][hapmap]
rs3782949	0.85[CHB][hapmap]
rs4148518	0.83[JPT][hapmap]
rs4148527	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4148530	0.90[CHB][hapmap];0.83[CHD][hapmap]
rs4148532	0.90[CHB][hapmap]
rs4148534	0.85[CHB][hapmap]
rs4148535	0.85[CHB][hapmap]
rs6650282	0.95[CHB][hapmap];0.86[CHD][hapmap];0.82[ASN][1000 genomes]
rs8001657	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs922522	0.85[CHB][hapmap]
rs9561775	0.85[CHB][hapmap]
rs9561778	0.85[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832688	chr13:95633193-95780198	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:95723800-95760000	Weak transcription	Colon Smooth Muscle	Colon
2	chr13:95724000-95760600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr13:95727000-95791600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr13:95727000-95812000	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr13:95727600-95761000	Weak transcription	K562	blood
6	chr13:95727800-95767800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr13:95728400-95778800	Weak transcription	Ovary	ovary
8	chr13:95728600-95776000	Weak transcription	Gastric	stomach
9	chr13:95731200-95791600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr13:95731600-95756000	Weak transcription	Stomach Smooth Muscle	stomach
11	chr13:95731600-95756600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr13:95740400-95756600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr13:95740600-95772200	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr13:95740800-95791200	Weak transcription	NHLF	lung
15	chr13:95741000-95756800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr13:95741400-95763400	Weak transcription	Left Ventricle	heart
17	chr13:95741600-95772600	Weak transcription	Primary hematopoietic stem cells	blood
18	chr13:95744200-95765200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr13:95749600-95761000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr13:95750400-95757000	Weak transcription	Fetal Intestine Small	intestine
21	chr13:95750400-95812400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr13:95750400-95815400	Weak transcription	Fetal Intestine Large	intestine
23	chr13:95751000-95793400	Weak transcription	Fetal Kidney	kidney
24	chr13:95751400-95777600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr13:95751600-95756400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr13:95751600-95756600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr13:95751600-95795600	Weak transcription	Small Intestine	intestine
28	chr13:95752000-95756800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr13:95752000-95757400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr13:95752000-95789000	Weak transcription	Aorta	Aorta
31	chr13:95752200-95757400	Weak transcription	Lung	lung
32	chr13:95752200-95760600	Weak transcription	GM12878-XiMat	blood
33	chr13:95752200-95823200	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr13:95752200-95844200	Weak transcription	Rectal Smooth Muscle	rectum
35	chr13:95752400-95757000	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr13:95752600-95756000	Weak transcription	Primary T cells from cord blood	blood
37	chr13:95753400-95775400	Weak transcription	HSMMtube	muscle
38	chr13:95753600-95756000	Weak transcription	HSMM	muscle
39	chr13:95753600-95757000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr13:95753600-95761000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr13:95753600-95767400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr13:95753600-95772600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr13:95753800-95755600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr13:95754000-95766800	Weak transcription	Osteobl	bone
45	chr13:95754000-95777200	Weak transcription	NHDF-Ad	bronchial
46	chr13:95754000-95794800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr13:95754400-95756200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr13:95754400-95756400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr13:95754400-95768000	Weak transcription	NH-A	brain
50	chr13:95754400-95782600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links