Variant report

Variant	rs71569402
Chromosome Location	chr6:37975181-37975182
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	chr6:37974723..37976308-chr6:37979935..37981504,2	MCF-7	breast:

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs11750950	0.82[ASN][1000 genomes]
rs11751781	0.89[ASN][1000 genomes]
rs11751927	0.86[ASN][1000 genomes]
rs11752521	0.86[ASN][1000 genomes]
rs11756713	0.85[ASN][1000 genomes]
rs11759826	0.88[ASN][1000 genomes]
rs11969988	0.85[ASN][1000 genomes]
rs12660498	0.82[ASN][1000 genomes]
rs12660773	0.80[ASN][1000 genomes]
rs12660919	0.86[ASN][1000 genomes]
rs12661109	0.80[ASN][1000 genomes]
rs12661480	0.81[ASN][1000 genomes]
rs12662823	0.80[ASN][1000 genomes]
rs12663957	0.80[ASN][1000 genomes]
rs12664091	0.85[ASN][1000 genomes]
rs13198459	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs13200310	0.88[AMR][1000 genomes]
rs13203867	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs13206035	0.88[ASN][1000 genomes]
rs13210087	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs13210967	0.88[AMR][1000 genomes]
rs13212369	0.84[EUR][1000 genomes]
rs13217630	0.88[EUR][1000 genomes]
rs13219500	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs16890267	0.86[ASN][1000 genomes]
rs16890298	0.82[ASN][1000 genomes]
rs16890299	0.82[ASN][1000 genomes]
rs16890301	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16890305	0.83[ASN][1000 genomes]
rs16890307	0.82[ASN][1000 genomes]
rs16890309	0.83[ASN][1000 genomes]
rs2273441	0.86[ASN][1000 genomes]
rs2395689	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2645104	0.87[EUR][1000 genomes]
rs2645111	0.92[ASN][1000 genomes]
rs2645115	0.89[EUR][1000 genomes]
rs2645118	0.91[EUR][1000 genomes]
rs2645121	0.91[EUR][1000 genomes]
rs2645123	0.87[EUR][1000 genomes]
rs2645125	0.95[ASN][1000 genomes]
rs2645126	0.91[EUR][1000 genomes]
rs2645130	0.87[ASN][1000 genomes]
rs28385568	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2842498	0.89[EUR][1000 genomes]
rs2842510	0.87[ASN][1000 genomes]
rs2842511	0.88[ASN][1000 genomes]
rs2842512	0.88[ASN][1000 genomes]
rs2842521	0.95[ASN][1000 genomes]
rs2842524	0.87[EUR][1000 genomes]
rs33997846	0.82[EUR][1000 genomes]
rs34038972	0.88[EUR][1000 genomes]
rs34123707	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34254045	0.86[ASN][1000 genomes]
rs34406273	0.88[EUR][1000 genomes]
rs34449592	0.84[AFR][1000 genomes]
rs34450348	0.89[ASN][1000 genomes]
rs34618835	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs34634043	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs34754573	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs35051126	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35202194	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35379375	0.88[AMR][1000 genomes]
rs35465740	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs35575717	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs35597126	0.88[EUR][1000 genomes]
rs35772972	0.88[ASN][1000 genomes]
rs35815938	0.84[EUR][1000 genomes]
rs36069529	0.82[AFR][1000 genomes]
rs3844314	0.85[ASN][1000 genomes]
rs4394213	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs55786703	0.83[ASN][1000 genomes]
rs55943813	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56023538	0.89[ASN][1000 genomes]
rs56678832	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs57458792	0.82[ASN][1000 genomes]
rs58084785	0.83[ASN][1000 genomes]
rs58473303	0.80[ASN][1000 genomes]
rs59996041	0.81[ASN][1000 genomes]
rs60404082	0.80[ASN][1000 genomes]
rs60508820	0.80[ASN][1000 genomes]
rs61277916	0.80[ASN][1000 genomes]
rs6458037	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6906289	0.83[ASN][1000 genomes]
rs6908761	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6911716	0.83[ASN][1000 genomes]
rs6916057	0.84[EUR][1000 genomes]
rs6917208	0.88[EUR][1000 genomes]
rs6917736	0.87[AFR][1000 genomes]
rs6919884	0.81[AFR][1000 genomes]
rs6923132	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs6923254	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs6923665	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6925563	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs6940491	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71569397	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs71569399	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs71571304	0.84[EUR][1000 genomes]
rs752110	0.81[ASN][1000 genomes]
rs7740636	0.88[EUR][1000 genomes]
rs7747996	0.86[ASN][1000 genomes]
rs7748312	0.86[ASN][1000 genomes]
rs7757560	0.89[EUR][1000 genomes]
rs7759792	0.89[ASN][1000 genomes]
rs7775794	0.87[ASN][1000 genomes]
rs7776025	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1018711	chr6:37813397-37981590	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv602956	chr6:37909084-37986489	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	esv2753764	chr6:37963308-37978172	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	esv34450	chr6:37963308-38007241	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37956200-37978800	Weak transcription	Primary T cells from cord blood	blood
2	chr6:37957800-37976400	Weak transcription	Aorta	Aorta
3	chr6:37959400-37975600	Weak transcription	Left Ventricle	heart
4	chr6:37960800-37982400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:37962200-37975800	Weak transcription	Liver	Liver
6	chr6:37963000-37975600	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr6:37963000-37975800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:37963000-37977600	Weak transcription	Ovary	ovary
9	chr6:37963000-37984800	Weak transcription	Right Atrium	heart
10	chr6:37963000-37995600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:37965600-37982200	Weak transcription	Psoas Muscle	Psoas
12	chr6:37965800-37979000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr6:37967600-37977600	Weak transcription	Primary B cells from cord blood	blood
14	chr6:37969200-37987800	Weak transcription	Fetal Kidney	kidney
15	chr6:37969400-37976400	Weak transcription	Colon Smooth Muscle	Colon
16	chr6:37969400-37977600	Weak transcription	Fetal Intestine Small	intestine
17	chr6:37970800-37984200	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr6:37971000-37976200	Weak transcription	HepG2	liver
19	chr6:37971200-37975800	Weak transcription	Fetal Heart	heart
20	chr6:37972200-37976000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:37972400-37983800	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr6:37972800-37976400	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr6:37973800-37977600	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr6:37974000-37976200	Weak transcription	Fetal Lung	lung
25	chr6:37974000-37977000	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr6:37974400-37977000	Weak transcription	Fetal Stomach	stomach
27	chr6:37974800-37984600	Weak transcription	Placenta	Placenta

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