Variant report

Variant	rs62275575
Chromosome Location	chr3:156342575-156342576
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156271473..156272989-chr3:156341064..156343345,2	MCF-7	breast:
2	chr3:156324594..156326430-chr3:156340933..156343753,2	K562	blood:
3	chr3:156342470..156344204-chr3:156404618..156406838,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114850	Chromatin interaction

Extended variants
information (count: 132 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:129)

rs_ID	r²[population]
rs17380639	1.00[AMR][1000 genomes]
rs17381024	1.00[AMR][1000 genomes]
rs17381930	1.00[AMR][1000 genomes]
rs17440227	1.00[AMR][1000 genomes]
rs17440656	1.00[AMR][1000 genomes]
rs17440944	1.00[AMR][1000 genomes]
rs62273860	1.00[AMR][1000 genomes]
rs62273861	1.00[AMR][1000 genomes]
rs62273862	1.00[AMR][1000 genomes]
rs62273892	1.00[AMR][1000 genomes]
rs62273893	1.00[AMR][1000 genomes]
rs62273895	1.00[AMR][1000 genomes]
rs62273896	1.00[AMR][1000 genomes]
rs62273897	1.00[AMR][1000 genomes]
rs62273898	1.00[AMR][1000 genomes]
rs62273899	1.00[AMR][1000 genomes]
rs62273900	1.00[AMR][1000 genomes]
rs62273901	0.89[AMR][1000 genomes]
rs62273902	1.00[AMR][1000 genomes]
rs62273904	1.00[AMR][1000 genomes]
rs62273905	1.00[AMR][1000 genomes]
rs62273906	1.00[AMR][1000 genomes]
rs62273907	1.00[AMR][1000 genomes]
rs62273908	1.00[AMR][1000 genomes]
rs62273909	1.00[AMR][1000 genomes]
rs62273910	1.00[AMR][1000 genomes]
rs62273912	1.00[AMR][1000 genomes]
rs62273913	1.00[AMR][1000 genomes]
rs62273914	1.00[AMR][1000 genomes]
rs62273915	1.00[AMR][1000 genomes]
rs62273916	1.00[AMR][1000 genomes]
rs62273917	1.00[AMR][1000 genomes]
rs62273918	1.00[AMR][1000 genomes]
rs62273919	1.00[AMR][1000 genomes]
rs62273920	1.00[AMR][1000 genomes]
rs62273921	1.00[AMR][1000 genomes]
rs62273922	1.00[AMR][1000 genomes]
rs62273955	1.00[AMR][1000 genomes]
rs62273956	1.00[AMR][1000 genomes]
rs62273958	1.00[AMR][1000 genomes]
rs62273959	1.00[AMR][1000 genomes]
rs62274040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62274041	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62274042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62274046	1.00[AMR][1000 genomes]
rs62274047	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62275160	1.00[AMR][1000 genomes]
rs62275163	1.00[AMR][1000 genomes]
rs62275164	1.00[AMR][1000 genomes]
rs62275165	0.89[AMR][1000 genomes]
rs62275166	1.00[AMR][1000 genomes]
rs62275170	1.00[AMR][1000 genomes]
rs62275171	0.89[AMR][1000 genomes]
rs62275173	1.00[AMR][1000 genomes]
rs62275174	1.00[AMR][1000 genomes]
rs62275175	1.00[AMR][1000 genomes]
rs62275176	1.00[AMR][1000 genomes]
rs62275574	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62275576	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62275577	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62275579	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62275580	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62275581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62275646	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62275647	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62275648	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62275650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62275651	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62275653	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276613	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276615	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276616	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62276618	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276619	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276623	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276625	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62277073	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277074	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277076	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277077	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277078	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277079	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277080	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277081	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62277084	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62277085	1.00[AMR][1000 genomes]
rs62277086	1.00[AMR][1000 genomes]
rs62277087	1.00[AMR][1000 genomes]
rs62277088	1.00[AMR][1000 genomes]
rs62277089	1.00[AMR][1000 genomes]
rs62277090	1.00[AMR][1000 genomes]
rs62277091	1.00[AMR][1000 genomes]
rs62277092	1.00[AMR][1000 genomes]
rs62277093	1.00[AMR][1000 genomes]
rs62277096	1.00[AMR][1000 genomes]
rs62277097	1.00[AMR][1000 genomes]
rs62277098	1.00[AMR][1000 genomes]
rs62277099	1.00[AMR][1000 genomes]
rs62277140	1.00[AMR][1000 genomes]
rs62277141	1.00[AMR][1000 genomes]
rs62277142	1.00[AMR][1000 genomes]
rs62277143	1.00[AMR][1000 genomes]
rs62277144	1.00[AMR][1000 genomes]
rs62277145	1.00[AMR][1000 genomes]
rs62277146	1.00[AMR][1000 genomes]
rs62277147	1.00[AMR][1000 genomes]
rs62277148	1.00[AMR][1000 genomes]
rs62277149	1.00[AMR][1000 genomes]
rs62277150	1.00[AMR][1000 genomes]
rs62277153	1.00[AMR][1000 genomes]
rs62277155	1.00[AMR][1000 genomes]
rs62277156	1.00[AMR][1000 genomes]
rs62277157	1.00[AMR][1000 genomes]
rs62277158	1.00[AMR][1000 genomes]
rs62277391	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62277392	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62277396	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62277398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62278060	0.89[AMR][1000 genomes]
rs62278061	1.00[AMR][1000 genomes]
rs62278062	1.00[AMR][1000 genomes]
rs62278064	1.00[AMR][1000 genomes]
rs62278065	1.00[AMR][1000 genomes]
rs7651446	0.85[EUR][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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv829764	chr3:156174824-156347774	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
3	nsv877684	chr3:156294987-156344825	Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156336400-156345800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr3:156338400-156343400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr3:156338800-156343600	Weak transcription	Fetal Intestine Large	intestine
4	chr3:156338800-156345800	Weak transcription	Fetal Intestine Small	intestine
5	chr3:156339000-156343400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:156339000-156343600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:156339000-156343800	Weak transcription	K562	blood
8	chr3:156339200-156343600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:156339200-156343600	Weak transcription	HMEC	breast
10	chr3:156339200-156343600	Weak transcription	NHEK	skin
11	chr3:156339200-156343800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:156339200-156346000	Weak transcription	HSMM	muscle
13	chr3:156339200-156347800	Weak transcription	Esophagus	oesophagus
14	chr3:156339600-156343400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr3:156341200-156343600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:156342000-156342800	Weak transcription	Lung	lung
17	chr3:156342200-156345000	Weak transcription	Fetal Heart	heart

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