Variant report

Variant	rs13088239
Chromosome Location	chr3:141056646-141056647
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:141052445..141054291-chr3:141054574..141056796,2	MCF-7	breast:
2	chr3:141054751..141056991-chr3:141142273..141144878,2	MCF-7	breast:
3	chr3:141054208..141057606-chr3:141059807..141061537,3	K562	blood:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs13094525	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1983233	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2871887	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4683600	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6439999	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6778010	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6807533	0.99[ASN][1000 genomes]
rs72986540	0.96[ASN][1000 genomes]
rs72986545	0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829744	chr3:141016749-141189168	Genic enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv460871	chr3:141027614-141074962	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv591893	chr3:141027614-141074962	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141049200-141057000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr3:141049400-141056800	Enhancers	NHLF	lung
3	chr3:141050600-141057000	Enhancers	NHDF-Ad	bronchial
4	chr3:141053800-141056800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:141053800-141058200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:141054200-141057000	Enhancers	Muscle Satellite Cultured Cells	--
7	chr3:141054400-141056800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr3:141054400-141056800	Enhancers	HSMMtube	muscle
9	chr3:141054800-141057000	Enhancers	HMEC	breast
10	chr3:141055400-141056800	Enhancers	Primary B cells from peripheral blood	blood
11	chr3:141055400-141056800	Enhancers	HSMM	muscle
12	chr3:141055400-141056800	Enhancers	HUVEC	blood vessel
13	chr3:141055600-141056800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:141055600-141056800	Enhancers	NHEK	skin
15	chr3:141055600-141057000	Flanking Active TSS	GM12878-XiMat	blood
16	chr3:141055800-141056800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr3:141055800-141056800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr3:141055800-141056800	Enhancers	HepG2	liver
19	chr3:141055800-141057000	Enhancers	Fetal Intestine Small	intestine
20	chr3:141055800-141058400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:141056200-141056800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr3:141056400-141057000	Enhancers	Pancreatic Islets	Pancreatic Islet
23	chr3:141056400-141061600	Weak transcription	Small Intestine	intestine
24	chr3:141056400-141079400	Weak transcription	A549	lung
25	chr3:141056600-141056800	Enhancers	NH-A	brain
26	chr3:141056600-141057800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr3:141056600-141058000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr3:141056600-141058000	Weak transcription	K562	blood
29	chr3:141056600-141060000	Weak transcription	Fetal Intestine Large	intestine
30	chr3:141056600-141061400	Weak transcription	Duodenum Mucosa	Duodenum
31	chr3:141056600-141064200	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr3:141056600-141064800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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