Variant report

Variant	rs2263954
Chromosome Location	chr12:104255498-104255499
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:104252726..104255857-chr12:104256920..104259686,3	MCF-7	breast:
2	chr12:104164135..104167659-chr12:104253252..104255970,3	MCF-7	breast:
3	chr12:104176628..104179392-chr12:104253819..104256321,2	K562	blood:
4	chr12:104250532..104253421-chr12:104255015..104257063,2	K562	blood:

Variant related genes	Relation type
ENSG00000111696	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10745982	0.86[EUR][1000 genomes]
rs10745983	0.84[EUR][1000 genomes]
rs10778291	0.85[EUR][1000 genomes]
rs10778293	0.86[EUR][1000 genomes]
rs10778294	0.86[EUR][1000 genomes]
rs10778295	0.84[EUR][1000 genomes]
rs10861128	0.86[EUR][1000 genomes]
rs10861129	0.86[EUR][1000 genomes]
rs11111816	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11111817	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1165596	0.86[EUR][1000 genomes]
rs1165597	0.86[EUR][1000 genomes]
rs1165598	0.86[EUR][1000 genomes]
rs1185985	0.86[EUR][1000 genomes]
rs12312978	0.86[EUR][1000 genomes]
rs1583599	0.86[EUR][1000 genomes]
rs1595338	0.86[EUR][1000 genomes]
rs1595339	0.86[EUR][1000 genomes]
rs2196614	0.86[EUR][1000 genomes]
rs2248382	0.85[EUR][1000 genomes]
rs2251979	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2252000	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2252088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2374353	0.86[EUR][1000 genomes]
rs2438116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2438389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2439622	0.85[EUR][1000 genomes]
rs2576950	0.85[EUR][1000 genomes]
rs2576957	0.85[EUR][1000 genomes]
rs2576958	0.85[EUR][1000 genomes]
rs2576960	0.85[EUR][1000 genomes]
rs2576961	0.85[EUR][1000 genomes]
rs2576962	0.85[EUR][1000 genomes]
rs2576963	0.85[EUR][1000 genomes]
rs2576964	0.85[EUR][1000 genomes]
rs2576965	0.84[EUR][1000 genomes]
rs2576967	0.84[EUR][1000 genomes]
rs2583240	0.85[EUR][1000 genomes]
rs2583241	0.85[EUR][1000 genomes]
rs2583242	0.84[EUR][1000 genomes]
rs2583243	0.85[EUR][1000 genomes]
rs2583245	0.85[EUR][1000 genomes]
rs2583246	0.85[EUR][1000 genomes]
rs2583247	0.85[EUR][1000 genomes]
rs2583248	0.85[EUR][1000 genomes]
rs2583250	0.82[EUR][1000 genomes]
rs4316574	0.85[EUR][1000 genomes]
rs4488278	0.85[EUR][1000 genomes]
rs4556622	0.86[EUR][1000 genomes]
rs6539104	0.98[ASN][1000 genomes]
rs728165	0.86[EUR][1000 genomes]
rs7301119	0.94[ASN][1000 genomes]
rs7957036	0.95[ASN][1000 genomes]
rs7967501	0.85[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	esv34031	chr12:104114277-104298546	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
2	nsv560039	chr12:104177668-104455340	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:104250000-104257000	Weak transcription	Pancreas	Pancrea
2	chr12:104250000-104263800	Weak transcription	Liver	Liver
3	chr12:104252200-104255800	Enhancers	Placenta	Placenta
4	chr12:104253600-104261600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr12:104254000-104258600	Weak transcription	HSMMtube	muscle
6	chr12:104254400-104255600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr12:104254400-104256800	Weak transcription	Ovary	ovary
8	chr12:104254400-104256800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr12:104254400-104257600	Weak transcription	Esophagus	oesophagus
10	chr12:104254400-104257800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr12:104254400-104258000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr12:104254400-104258000	Weak transcription	NHEK	skin
13	chr12:104254400-104258600	Weak transcription	HSMM	muscle
14	chr12:104254400-104258800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr12:104254600-104256200	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr12:104254800-104255600	Weak transcription	Rectal Smooth Muscle	rectum
17	chr12:104254800-104256200	Weak transcription	Stomach Smooth Muscle	stomach
18	chr12:104254800-104278200	Weak transcription	Aorta	Aorta
19	chr12:104255000-104256000	Weak transcription	Colon Smooth Muscle	Colon
20	chr12:104255000-104257800	Weak transcription	HMEC	breast
21	chr12:104255000-104259200	Weak transcription	Osteobl	bone
22	chr12:104255200-104255600	Enhancers	Placenta Amnion	Placenta Amnion
23	chr12:104255200-104257800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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