Variant report

Variant	rs61207262
Chromosome Location	chr6:1737768-1737769
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	chr6:1728980..1730810-chr6:1735730..1738252,2	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1013303	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1040528	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1040530	0.83[EUR][1000 genomes]
rs11242719	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12197874	0.81[ASN][1000 genomes]
rs12200248	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12206354	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2143402	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34669469	0.94[EUR][1000 genomes]
rs3734739	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3734740	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3734741	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3800031	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3800033	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3800034	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3800035	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3800042	0.90[AFR][1000 genomes]
rs3823262	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4546532	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4959155	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4959605	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4959608	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57849524	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6596848	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6596849	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6596853	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6596854	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6596855	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66477179	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67800638	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6906968	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6911480	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6916760	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6933551	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6935246	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6935905	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs761148	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7740666	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7749846	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7753928	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9391929	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9391930	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9392332	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9392333	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9392335	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9392336	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9503018	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9503019	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv491607	chr6:1580681-1951526	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv530888	chr6:1605768-1739933	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv1020603	chr6:1697548-1921374	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv538093	chr6:1697548-1921374	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv600809	chr6:1732741-1775436	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	esv3333870	chr6:1735853-1740251	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	esv3399950	chr6:1735853-1740351	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1701200-1749400	Weak transcription	Colonic Mucosa	Colon
2	chr6:1716000-1749200	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr6:1721200-1746200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:1721200-1748800	Weak transcription	Osteobl	bone
5	chr6:1721400-1739400	Weak transcription	Hela-S3	cervix
6	chr6:1723000-1743200	Strong transcription	HepG2	liver
7	chr6:1725000-1737800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr6:1726800-1749000	Weak transcription	Duodenum Mucosa	Duodenum
9	chr6:1726800-1749000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr6:1731800-1745000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:1731800-1746200	Weak transcription	Right Atrium	heart
12	chr6:1732200-1744800	Weak transcription	Aorta	Aorta
13	chr6:1732200-1750600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr6:1732200-1756600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:1735800-1738000	Weak transcription	Spleen	Spleen
16	chr6:1735800-1741600	Weak transcription	Fetal Intestine Small	intestine
17	chr6:1736000-1737800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr6:1736000-1737800	Weak transcription	Pancreas	Pancrea
19	chr6:1736000-1746200	Weak transcription	Esophagus	oesophagus
20	chr6:1736000-1746200	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr6:1736400-1739200	Enhancers	GM12878-XiMat	blood
22	chr6:1736400-1746200	Weak transcription	Right Ventricle	heart
23	chr6:1737000-1749000	Weak transcription	Stomach Mucosa	stomach
24	chr6:1737200-1738000	Weak transcription	Primary B cells from peripheral blood	blood
25	chr6:1737200-1738200	Weak transcription	Brain Germinal Matrix	brain
26	chr6:1737400-1746200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr6:1737600-1737800	Enhancers	Fetal Kidney	kidney
28	chr6:1737600-1738400	Strong transcription	Primary T cells from cord blood	blood
29	chr6:1737600-1738400	Genic enhancers	Gastric	stomach

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