Variant report

Variant	rs61845936
Chromosome Location	chr10:28563153-28563154
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	chr10:28558708..28561649-chr10:28562731..28565545,2	MCF-7	breast:

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10763653	0.85[ASN][1000 genomes]
rs10826426	0.85[ASN][1000 genomes]
rs10826427	0.85[ASN][1000 genomes]
rs10826428	0.85[ASN][1000 genomes]
rs10826429	0.85[ASN][1000 genomes]
rs10826430	0.84[ASN][1000 genomes]
rs10826431	0.88[ASN][1000 genomes]
rs10826438	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10826439	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006924	0.85[ASN][1000 genomes]
rs11006930	0.85[ASN][1000 genomes]
rs11006931	0.85[ASN][1000 genomes]
rs11006940	0.93[ASN][1000 genomes]
rs11006953	0.96[ASN][1000 genomes]
rs11006972	0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11006974	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006975	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006976	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006977	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006979	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006980	0.99[ASN][1000 genomes]
rs11006981	0.99[ASN][1000 genomes]
rs11006982	0.99[ASN][1000 genomes]
rs11813709	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11814117	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12243871	0.85[ASN][1000 genomes]
rs12243947	0.85[ASN][1000 genomes]
rs12247867	0.85[ASN][1000 genomes]
rs12258617	0.85[ASN][1000 genomes]
rs12258912	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12263084	0.84[ASN][1000 genomes]
rs12263807	0.85[ASN][1000 genomes]
rs12264931	0.85[ASN][1000 genomes]
rs12355677	0.99[ASN][1000 genomes]
rs12356457	0.99[ASN][1000 genomes]
rs12357214	0.85[ASN][1000 genomes]
rs12357236	0.85[ASN][1000 genomes]
rs12357685	0.99[ASN][1000 genomes]
rs12358399	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12359569	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12359994	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1840877	0.85[ASN][1000 genomes]
rs1840879	0.85[ASN][1000 genomes]
rs3847384	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41406248	0.96[ASN][1000 genomes]
rs55654850	0.88[ASN][1000 genomes]
rs58057536	0.88[ASN][1000 genomes]
rs61845919	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61845921	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6481511	0.84[ASN][1000 genomes]
rs6481513	0.85[ASN][1000 genomes]
rs6481514	0.88[ASN][1000 genomes]
rs7070142	0.84[ASN][1000 genomes]
rs7071331	0.83[ASN][1000 genomes]
rs7072588	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7072854	0.93[ASN][1000 genomes]
rs7078842	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7081371	0.85[ASN][1000 genomes]
rs7084650	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7084702	0.85[ASN][1000 genomes]
rs7084878	0.85[ASN][1000 genomes]
rs7085924	0.84[ASN][1000 genomes]
rs7086267	0.85[ASN][1000 genomes]
rs7086807	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7086943	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7090735	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7091031	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7091331	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7092706	0.88[ASN][1000 genomes]
rs7094807	0.84[ASN][1000 genomes]
rs7097351	0.85[ASN][1000 genomes]
rs7100582	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7100619	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7100983	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7101006	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73608074	0.85[ASN][1000 genomes]
rs7893685	0.83[ASN][1000 genomes]
rs7893733	0.84[ASN][1000 genomes]
rs7893878	0.84[ASN][1000 genomes]
rs7893935	0.83[ASN][1000 genomes]
rs7923023	0.99[ASN][1000 genomes]
rs9664773	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	nsv6199	chr10:28555515-28563204	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1040916	chr10:28558982-28579141	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
8	nsv466856	chr10:28562647-28571860	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv470929	chr10:28562647-28571860	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv550285	chr10:28562647-28571860	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv818752	chr10:28562647-28571860	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv437663	chr10:28562647-28585496	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28550400-28582600	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr10:28550600-28563600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr10:28551400-28563600	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr10:28553000-28570800	Weak transcription	Esophagus	oesophagus
5	chr10:28553200-28568400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr10:28553400-28569600	Weak transcription	Pancreas	Pancrea
7	chr10:28553800-28563400	Weak transcription	HepG2	liver
8	chr10:28556000-28563400	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr10:28556200-28563400	Weak transcription	Primary T cells from cord blood	blood
10	chr10:28556200-28563400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr10:28556200-28570800	Weak transcription	Primary B cells from cord blood	blood
12	chr10:28556400-28563800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr10:28556400-28571000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr10:28557600-28567800	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr10:28557800-28568000	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr10:28558200-28568200	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr10:28559600-28570800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr10:28560400-28563400	Weak transcription	Colon Smooth Muscle	Colon
19	chr10:28560400-28567800	Weak transcription	Fetal Heart	heart
20	chr10:28562600-28563400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr10:28562600-28563800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr10:28562600-28570800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links