Variant report

Variant	rs10804029
Chromosome Location	chr2:190204113-190204114
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10166385	0.87[EUR][1000 genomes]
rs10166420	0.81[ASN][1000 genomes]
rs10167242	0.92[EUR][1000 genomes]
rs10172607	0.87[EUR][1000 genomes]
rs10173224	0.87[EUR][1000 genomes]
rs10175108	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs10184895	0.87[EUR][1000 genomes]
rs10188246	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10198663	0.94[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap]
rs10207812	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.85[TSI][hapmap];0.96[YRI][hapmap]
rs10210634	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10931401	0.82[CHB][hapmap];0.89[JPT][hapmap];0.89[YRI][hapmap]
rs10931403	0.87[EUR][1000 genomes]
rs10931405	0.92[EUR][1000 genomes]
rs10931417	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11676905	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11677167	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11678414	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs12474942	0.87[EUR][1000 genomes]
rs12613903	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs12621657	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12693539	0.86[ASN][1000 genomes]
rs12994482	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13009912	0.81[ASN][1000 genomes]
rs13015207	0.86[ASN][1000 genomes]
rs13018252	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13035381	0.92[ASN][1000 genomes]
rs13408928	0.87[EUR][1000 genomes]
rs13411992	0.87[EUR][1000 genomes]
rs13413518	0.87[EUR][1000 genomes]
rs1356976	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1464135	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs1474000	0.97[EUR][1000 genomes]
rs1520854	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1520856	0.90[ASN][1000 genomes]
rs1520858	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs1595749	0.94[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap]
rs16831454	0.83[ASN][1000 genomes]
rs1851104	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1866605	0.94[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap]
rs1992295	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2304702	0.85[ASN][1000 genomes]
rs2351632	0.87[EUR][1000 genomes]
rs2351635	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2351932	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2351934	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs2683012	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2882805	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4580411	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4666775	0.83[ASN][1000 genomes]
rs4667268	0.93[JPT][hapmap]
rs4667270	0.87[EUR][1000 genomes]
rs4667275	0.81[ASN][1000 genomes]
rs4667280	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4667284	0.89[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap]
rs6434334	0.92[EUR][1000 genomes]
rs6434337	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6434340	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6434342	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6434343	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6704568	0.97[EUR][1000 genomes]
rs6738193	0.86[ASN][1000 genomes]
rs6747222	0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6752545	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6761868	0.97[EUR][1000 genomes]
rs734859	0.81[ASN][1000 genomes]
rs7422875	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7425383	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7556928	0.92[ASN][1000 genomes]
rs7566093	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7574281	0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7574403	0.86[ASN][1000 genomes]
rs7603704	0.87[EUR][1000 genomes]
rs8179541	0.80[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[MKK][hapmap];0.81[ASN][1000 genomes]
rs8179732	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.81[ASN][1000 genomes]
rs939158	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9677436	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[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	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv875614	chr2:190110841-190254758	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190196400-190204600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:190203200-190204200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr2:190203200-190204200	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr2:190203200-190204200	Weak transcription	Osteobl	bone
5	chr2:190203200-190204600	Weak transcription	Colon Smooth Muscle	Colon
6	chr2:190203400-190208400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr2:190203800-190205600	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr2:190203800-190205600	ZNF genes & repeats	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links