Variant report

Variant	rs12485299
Chromosome Location	chr3:99468666-99468667
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1038295	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10804762	0.87[ASN][1000 genomes]
rs1111615	0.83[CHB][hapmap]
rs12486901	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs12489030	0.83[ASN][1000 genomes]
rs12491153	1.00[CEU][hapmap]
rs12493124	1.00[CEU][hapmap]
rs1492343	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1610263	0.82[CEU][hapmap]
rs1610265	0.89[CEU][hapmap];0.91[CHB][hapmap];0.81[EUR][1000 genomes]
rs1871847	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1971381	0.88[JPT][hapmap]
rs2036984	0.80[CEU][hapmap];0.91[CHB][hapmap]
rs35590972	0.95[AMR][1000 genomes]
rs3732444	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3921767	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[ASN][1000 genomes]
rs4408901	0.85[JPT][hapmap]
rs4536867	0.82[CEU][hapmap];0.92[CHB][hapmap]
rs4928143	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4928144	0.88[JPT][hapmap]
rs4928219	1.00[JPT][hapmap]
rs4928220	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs4928222	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs55964918	0.95[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs56094673	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56140081	0.83[ASN][1000 genomes]
rs56223679	0.83[ASN][1000 genomes]
rs56260910	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs56335268	0.81[ASN][1000 genomes]
rs60119031	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61010376	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6789694	0.90[EUR][1000 genomes]
rs6792339	0.83[ASN][1000 genomes]
rs6800456	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.83[ASN][1000 genomes]
rs73858966	0.83[ASN][1000 genomes]
rs73859911	0.83[ASN][1000 genomes]
rs73860464	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73860470	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7614366	0.88[JPT][hapmap]
rs7632327	0.88[JPT][hapmap]
rs7632345	0.83[ASN][1000 genomes]
rs7635633	1.00[CEU][hapmap]
rs7635871	0.83[ASN][1000 genomes]
rs9821563	0.82[CEU][hapmap];0.92[CHB][hapmap]
rs9836385	0.83[CHB][hapmap]
rs9858145	0.80[CEU][hapmap];0.91[CHB][hapmap]

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	nsv877217	chr3:99418950-99496351	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv508231	chr3:99442020-99498951	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99440400-99471000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:99443400-99471400	Weak transcription	Aorta	Aorta
3	chr3:99458600-99470000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:99458600-99470200	Weak transcription	Lung	lung
5	chr3:99458600-99471000	Weak transcription	NHLF	lung
6	chr3:99458600-99471200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr3:99458600-99472200	Weak transcription	Adipose Nuclei	Adipose
8	chr3:99462400-99495600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr3:99464200-99470200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr3:99464200-99471400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:99465400-99469200	Weak transcription	HUVEC	blood vessel
12	chr3:99467000-99470000	Weak transcription	NHEK	skin
13	chr3:99467000-99470200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr3:99467000-99471200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr3:99467200-99469400	Weak transcription	NHDF-Ad	bronchial
16	chr3:99467200-99469600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr3:99467200-99469800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:99467200-99470000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr3:99467200-99471000	Weak transcription	NH-A	brain
20	chr3:99467600-99469600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr3:99467600-99471200	Weak transcription	HMEC	breast
22	chr3:99467800-99469600	Weak transcription	HSMM	muscle
23	chr3:99467800-99472000	Weak transcription	HSMMtube	muscle
24	chr3:99468000-99469400	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr3:99468400-99469200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:99468600-99469400	Strong transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links