Variant report

Variant	rs17202862
Chromosome Location	chr12:104769076-104769077
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:104530326..104532847-chr12:104766544..104769503,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000120837	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10735392	0.93[CEU][hapmap]
rs10735393	0.93[CEU][hapmap]
rs10735395	1.00[AFR][1000 genomes]
rs10745995	0.93[CEU][hapmap]
rs10745996	0.93[CEU][hapmap]
rs10861204	0.93[CEU][hapmap];1.00[AFR][1000 genomes]
rs11111919	1.00[AFR][1000 genomes]
rs11111943	1.00[AFR][1000 genomes]
rs17035504	0.93[CEU][hapmap]
rs17035521	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3935020	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3935021	0.89[EUR][1000 genomes]
rs4246264	0.86[CEU][hapmap];1.00[AFR][1000 genomes]
rs4246269	0.93[CEU][hapmap]
rs4246271	0.93[CEU][hapmap];1.00[AFR][1000 genomes]
rs4388968	0.88[CEU][hapmap]
rs4545635	0.85[CEU][hapmap];1.00[AFR][1000 genomes]
rs4630362	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs4964227	0.86[CEU][hapmap];1.00[AFR][1000 genomes]
rs4964228	0.86[CEU][hapmap];1.00[AFR][1000 genomes]
rs4964257	1.00[AFR][1000 genomes]
rs4964260	0.85[CEU][hapmap];1.00[AFR][1000 genomes]
rs4964288	0.93[CEU][hapmap];1.00[AFR][1000 genomes]
rs4964732	1.00[AFR][1000 genomes]
rs4964752	0.93[CEU][hapmap]
rs4964761	0.93[CEU][hapmap]
rs4964779	0.93[CEU][hapmap]
rs4964784	1.00[AFR][1000 genomes]
rs6539131	1.00[AFR][1000 genomes]
rs6539137	0.92[CEU][hapmap];1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs7138035	0.82[CEU][hapmap]
rs7138317	0.85[CEU][hapmap];1.00[AFR][1000 genomes]
rs7294997	0.91[CEU][hapmap]
rs7299669	1.00[AFR][1000 genomes]
rs73181916	1.00[AFR][1000 genomes]
rs73181919	1.00[AFR][1000 genomes]
rs73181926	1.00[AFR][1000 genomes]
rs73181944	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73183722	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7962423	0.93[CEU][hapmap]
rs7969604	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs9738614	1.00[AFR][1000 genomes]
rs9739826	1.00[AFR][1000 genomes]
rs9739833	0.93[CEU][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	nsv899494	chr12:104561521-104806232	Flanking Active TSS Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 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	chr12:104749800-104769400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr12:104765600-104770600	Weak transcription	NHLF	lung
3	chr12:104765800-104770200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr12:104765800-104770400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr12:104765800-104770400	Weak transcription	HSMM	muscle
6	chr12:104765800-104770400	Weak transcription	NHDF-Ad	bronchial
7	chr12:104765800-104770400	Weak transcription	Osteobl	bone
8	chr12:104765800-104770600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr12:104765800-104770600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr12:104765800-104770600	Weak transcription	HMEC	breast
11	chr12:104766000-104770400	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr12:104766000-104778200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr12:104766200-104770400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr12:104766200-104770400	Weak transcription	NHEK	skin
15	chr12:104766200-104770800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr12:104766400-104770600	Weak transcription	NH-A	brain
17	chr12:104766400-104775400	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr12:104766600-104770600	Weak transcription	Hela-S3	cervix
19	chr12:104766600-104771200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr12:104766800-104774800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr12:104767200-104775600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr12:104767200-104776000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr12:104768200-104770400	Enhancers	A549	lung
24	chr12:104768600-104769200	Enhancers	H1 Cell Line	embryonic stem cell
25	chr12:104768600-104771000	Weak transcription	Placenta	Placenta
26	chr12:104768800-104775400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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