Variant report

Variant	rs10169561
Chromosome Location	chr2:180458771-180458772
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10048645	0.81[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs1115013	0.82[ASN][1000 genomes]
rs11683314	0.81[CEU][hapmap]
rs11687634	0.81[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs11692794	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11889907	0.82[ASN][1000 genomes]
rs12693196	0.84[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs12693197	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13000027	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13000183	0.81[CEU][hapmap]
rs13000199	1.00[JPT][hapmap]
rs13012946	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13021168	0.82[ASN][1000 genomes]
rs13022986	0.82[ASN][1000 genomes]
rs13026689	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs13035781	0.86[JPT][hapmap]
rs13411084	0.81[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs13411180	0.84[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap]
rs1356069	0.86[JPT][hapmap]
rs1515315	0.86[JPT][hapmap]
rs1515317	0.86[JPT][hapmap]
rs1533385	0.81[JPT][hapmap]
rs1554101	0.85[JPT][hapmap]
rs1581175	0.82[ASN][1000 genomes]
rs1606814	0.82[ASN][1000 genomes]
rs1606816	0.81[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs16866810	0.95[JPT][hapmap]
rs16866815	0.81[CHB][hapmap]
rs16866822	0.84[CHB][hapmap]
rs16866832	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs16866842	0.84[CHB][hapmap]
rs16866850	0.81[CHB][hapmap]
rs16866857	0.86[JPT][hapmap]
rs17767681	0.84[CEU][hapmap]
rs17818050	0.95[JPT][hapmap]
rs1877943	0.86[JPT][hapmap]
rs2138195	0.81[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs2176061	0.95[JPT][hapmap];0.88[YRI][hapmap]
rs2222031	0.81[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap]
rs2887110	0.84[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs3106712	0.86[JPT][hapmap]
rs3106713	0.95[JPT][hapmap]
rs3106714	0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs4511690	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4894113	0.82[ASN][1000 genomes]
rs4894115	0.85[JPT][hapmap]
rs56219418	0.82[ASN][1000 genomes]
rs6717795	0.81[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs6728581	0.92[ASN][1000 genomes]
rs7425514	0.81[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap]
rs7558351	0.86[JPT][hapmap]
rs7593595	0.81[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs7601398	0.86[JPT][hapmap]
rs872158	0.85[CHB][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs872159	0.81[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs872160	0.81[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs951425	0.85[JPT][hapmap]
rs979901	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs988288	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs988290	0.81[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][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	nsv875471	chr2:180448523-180469778	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:180435200-180461000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:180456400-180459400	Active TSS	Skeletal Muscle Male	skeletal muscle
3	chr2:180456600-180459200	Active TSS	Skeletal Muscle Female	skeletal muscle
4	chr2:180456600-180459600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr2:180456800-180460400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr2:180457400-180459400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr2:180457600-180459200	Weak transcription	Osteobl	bone
8	chr2:180457800-180460600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr2:180458000-180459400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr2:180458000-180460800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr2:180458400-180459200	Active TSS	Psoas Muscle	Psoas
12	chr2:180458400-180460000	Enhancers	Fetal Heart	heart
13	chr2:180458600-180458800	Enhancers	Fetal Intestine Small	intestine

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