Variant report

Variant	rs6772134
Chromosome Location	chr3:177433541-177433542
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:177433236..177434010-chr9:80761704..80762529,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10513747	0.82[ASN][1000 genomes]
rs10513748	0.92[ASN][1000 genomes]
rs10513749	0.89[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs10513750	0.89[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs10936953	0.94[CHB][hapmap]
rs10936954	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12487458	0.89[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs12489304	0.95[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs13059117	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs13059514	0.94[CHB][hapmap]
rs13060224	0.81[ASN][1000 genomes]
rs13060502	0.81[ASN][1000 genomes]
rs13064192	0.82[ASN][1000 genomes]
rs13074455	0.80[ASN][1000 genomes]
rs13082519	0.89[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs13097562	0.84[ASN][1000 genomes]
rs13097723	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13098037	0.84[ASN][1000 genomes]
rs13340118	0.81[ASN][1000 genomes]
rs13340167	0.81[ASN][1000 genomes]
rs13340172	0.81[ASN][1000 genomes]
rs1499810	0.96[ASN][1000 genomes]
rs1499811	0.83[ASN][1000 genomes]
rs1500047	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1500048	0.80[ASN][1000 genomes]
rs1604032	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs17635597	0.80[ASN][1000 genomes]
rs1846628	0.94[ASN][1000 genomes]
rs2062499	0.88[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs2062500	0.94[CHB][hapmap]
rs28700961	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28711160	1.00[ASN][1000 genomes]
rs33964414	0.81[ASN][1000 genomes]
rs34066617	0.80[ASN][1000 genomes]
rs34188001	0.94[ASN][1000 genomes]
rs34347103	0.80[ASN][1000 genomes]
rs34992356	0.92[ASN][1000 genomes]
rs35468531	0.80[ASN][1000 genomes]
rs35791913	0.81[ASN][1000 genomes]
rs35830472	0.80[ASN][1000 genomes]
rs35868955	0.81[ASN][1000 genomes]
rs4857725	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4857726	0.98[ASN][1000 genomes]
rs57405296	0.81[ASN][1000 genomes]
rs62283347	0.84[ASN][1000 genomes]
rs6443481	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6443482	0.94[ASN][1000 genomes]
rs6765836	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6779492	0.92[ASN][1000 genomes]
rs6793629	0.84[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs6793647	1.00[ASN][1000 genomes]
rs6798785	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6803889	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7610506	0.81[ASN][1000 genomes]
rs7615900	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7639373	0.95[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs7641099	0.81[ASN][1000 genomes]
rs7644248	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7646117	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7652174	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs937507	0.92[ASN][1000 genomes]
rs937561	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][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	nsv931055	chr3:177229521-177889872	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv1013114	chr3:177421455-177443968	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:177430000-177448200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:177430000-177449000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:177431000-177433800	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr3:177432000-177433600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr3:177432600-177433800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr3:177432600-177439400	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:177432600-177439800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:177432800-177439600	Weak transcription	Adipose Nuclei	Adipose
9	chr3:177433200-177439600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr3:177433400-177433800	Enhancers	Monocytes-CD14+_RO01746	blood
11	chr3:177433400-177440200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:177433400-177440200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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