Variant report

Variant	rs10737342
Chromosome Location	chr1:180402668-180402669
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	chr1:180396509..180398136-chr1:180400657..180403081,2	MCF-7	breast:

Extended variants
information (count: 147 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:139)

rs_ID	r²[population]
rs10158367	0.81[ASN][1000 genomes]
rs10494527	0.85[CHB][hapmap];0.82[CHD][hapmap];0.83[ASN][1000 genomes]
rs10753209	0.89[CHB][hapmap];0.83[ASN][1000 genomes]
rs10753211	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs10753212	0.82[ASN][1000 genomes]
rs10798745	0.95[CHB][hapmap];0.84[ASN][1000 genomes]
rs10798746	0.90[CHB][hapmap]
rs10798752	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798753	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798754	1.00[ASN][1000 genomes]
rs10798756	0.83[ASN][1000 genomes]
rs10798757	0.83[ASN][1000 genomes]
rs10798759	0.90[CHB][hapmap];0.82[CHD][hapmap];0.83[ASN][1000 genomes]
rs10798760	0.82[ASN][1000 genomes]
rs10798761	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798762	0.90[CHB][hapmap];0.82[CHD][hapmap];0.81[ASN][1000 genomes]
rs10798766	0.82[ASN][1000 genomes]
rs10798767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10798769	0.82[CHB][hapmap]
rs10913969	0.90[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs10913970	0.89[ASN][1000 genomes]
rs10913974	0.83[ASN][1000 genomes]
rs10913976	0.83[ASN][1000 genomes]
rs10913978	0.83[ASN][1000 genomes]
rs10913980	0.90[CHB][hapmap];0.81[CHD][hapmap];0.83[ASN][1000 genomes]
rs10913981	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs10913982	0.83[ASN][1000 genomes]
rs10913983	0.83[ASN][1000 genomes]
rs10913984	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs10913985	0.90[CHB][hapmap];0.82[CHD][hapmap];0.81[ASN][1000 genomes]
rs10913986	0.83[ASN][1000 genomes]
rs10913987	0.83[ASN][1000 genomes]
rs10913994	0.90[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10913998	0.81[ASN][1000 genomes]
rs10914001	0.82[ASN][1000 genomes]
rs10914002	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10914005	0.82[CHB][hapmap]
rs10914007	0.88[JPT][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs10914014	0.80[ASN][1000 genomes]
rs10914017	0.89[CHB][hapmap]
rs10914018	0.86[CHB][hapmap]
rs10914023	0.80[CHD][hapmap];0.81[JPT][hapmap]
rs11580793	0.90[CHB][hapmap]
rs12024156	0.83[ASN][1000 genomes]
rs12034217	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs12034669	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12039331	0.81[JPT][hapmap]
rs12039933	0.90[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs12045123	0.91[ASN][1000 genomes]
rs12045636	0.95[ASN][1000 genomes]
rs12085808	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12091722	0.90[CHB][hapmap];0.82[JPT][hapmap];0.90[YRI][hapmap];0.86[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12122338	0.82[ASN][1000 genomes]
rs12127886	0.82[ASN][1000 genomes]
rs12128560	0.82[ASN][1000 genomes]
rs12129511	0.82[ASN][1000 genomes]
rs12129784	0.83[ASN][1000 genomes]
rs12131071	0.82[ASN][1000 genomes]
rs12132837	0.80[ASN][1000 genomes]
rs12135463	0.82[ASN][1000 genomes]
rs12142124	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12402815	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12403665	0.93[ASN][1000 genomes]
rs12404209	0.90[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs12405902	0.90[CHB][hapmap];0.91[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12407122	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12565492	0.86[CHB][hapmap]
rs12691484	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12730889	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs1341924	0.90[CHB][hapmap];0.92[CHD][hapmap];0.90[JPT][hapmap];0.94[LWK][hapmap];1.00[MKK][hapmap];0.84[YRI][hapmap];0.93[ASN][1000 genomes]
rs1418102	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538620	0.90[CHB][hapmap]
rs1890731	0.82[ASN][1000 genomes]
rs1925339	0.90[CHB][hapmap]
rs2296378	0.90[CHB][hapmap]
rs2794962	0.85[CHB][hapmap]
rs2794978	0.91[EUR][1000 genomes]
rs28506072	0.92[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2877399	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2877415	0.90[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs3737584	0.90[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.88[LWK][hapmap];0.94[MKK][hapmap];0.84[YRI][hapmap];0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs3806300	0.85[CHB][hapmap];0.82[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs3923222	0.82[ASN][1000 genomes]
rs4058058	0.90[CHB][hapmap]
rs4076403	0.90[CHB][hapmap];0.82[CHD][hapmap];0.83[ASN][1000 genomes]
rs4142992	0.82[ASN][1000 genomes]
rs4418555	0.80[ASN][1000 genomes]
rs4420052	0.83[ASN][1000 genomes]
rs4421553	0.90[CHB][hapmap];0.83[ASN][1000 genomes]
rs4424469	0.88[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4436345	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4442335	0.85[CHB][hapmap];0.80[CHD][hapmap];0.81[ASN][1000 genomes]
rs4483365	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.94[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4543756	0.90[CHB][hapmap];0.92[CHD][hapmap];0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs4562579	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4578179	0.90[CHB][hapmap];0.82[CHD][hapmap];0.83[ASN][1000 genomes]
rs4593778	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4607831	0.82[ASN][1000 genomes]
rs4634864	0.83[ASN][1000 genomes]
rs4642852	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4651064	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs4652493	0.85[CHB][hapmap]
rs4652495	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4652496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4652498	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4652499	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4652505	0.90[CHB][hapmap];0.81[ASN][1000 genomes]
rs55874160	1.00[ASN][1000 genomes]
rs60286873	0.90[AFR][1000 genomes];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6425625	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425634	0.90[CHB][hapmap];0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs6657492	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6658310	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs6659513	1.00[ASN][1000 genomes]
rs6661208	0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6665719	0.90[CHB][hapmap]
rs6670544	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs6674244	0.82[ASN][1000 genomes]
rs6678216	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6680368	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6697924	0.82[CHB][hapmap]
rs6700986	0.82[ASN][1000 genomes]
rs72720915	0.83[ASN][1000 genomes]
rs72720917	0.83[ASN][1000 genomes]
rs7523003	0.81[ASN][1000 genomes]
rs7523857	0.82[ASN][1000 genomes]
rs7526189	0.83[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7528650	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs7532806	0.88[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs7538219	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7538303	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7539910	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7544585	1.00[ASN][1000 genomes]
rs822706	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9425497	0.94[EUR][1000 genomes]
rs9425878	0.90[EUR][1000 genomes]
rs9425880	0.94[EUR][1000 genomes]
rs9701037	0.84[ASN][1000 genomes]
rs9729819	0.96[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	nsv1003739	chr1:180027760-180483292	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv535217	chr1:180027760-180483292	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv527918	chr1:180279710-180443808	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1013716	chr1:180287338-180477072	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
5	nsv535221	chr1:180287338-180477072	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
6	esv2762200	chr1:180300936-180493841	ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
7	nsv1003359	chr1:180300936-180727561	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
8	nsv946528	chr1:180400421-180405841	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180349400-180407000	Weak transcription	Esophagus	oesophagus
2	chr1:180356800-180406200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr1:180356800-180407000	Weak transcription	Aorta	Aorta
4	chr1:180361400-180407600	Weak transcription	HepG2	liver
5	chr1:180365200-180420600	Weak transcription	A549	lung
6	chr1:180374600-180404000	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr1:180376200-180407400	Weak transcription	NHLF	lung
8	chr1:180379000-180430800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr1:180379800-180406000	Weak transcription	Left Ventricle	heart
10	chr1:180380400-180408000	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr1:180381200-180402800	Weak transcription	NHEK	skin
12	chr1:180381200-180406400	Weak transcription	Fetal Stomach	stomach
13	chr1:180382400-180410800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr1:180382600-180402800	Weak transcription	Placenta	Placenta
15	chr1:180382600-180406000	Weak transcription	Dnd41	blood
16	chr1:180382600-180406400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr1:180382600-180406600	Weak transcription	Hela-S3	cervix
18	chr1:180389600-180406000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr1:180389800-180410400	Weak transcription	Fetal Intestine Large	intestine
20	chr1:180391000-180409000	Weak transcription	Primary T cells from cord blood	blood
21	chr1:180391200-180410200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr1:180391400-180404800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr1:180391600-180403800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr1:180391800-180402800	Weak transcription	Fetal Intestine Small	intestine
25	chr1:180391800-180404000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr1:180391800-180408000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr1:180392000-180403000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr1:180392200-180405400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr1:180392600-180446200	Weak transcription	K562	blood
30	chr1:180394400-180407000	Weak transcription	Psoas Muscle	Psoas
31	chr1:180394400-180407800	Weak transcription	Primary B cells from peripheral blood	blood
32	chr1:180394600-180405000	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr1:180394600-180407000	Weak transcription	Brain Germinal Matrix	brain
34	chr1:180394800-180403000	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr1:180394800-180420200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr1:180395800-180402800	Weak transcription	Fetal Brain Female	brain
37	chr1:180396000-180404800	Weak transcription	Fetal Lung	lung
38	chr1:180398000-180408000	Weak transcription	Fetal Heart	heart
39	chr1:180398800-180405600	Weak transcription	Primary B cells from cord blood	blood
40	chr1:180399000-180420800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr1:180399400-180407000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr1:180399600-180420400	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr1:180399600-180420400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr1:180401400-180402800	Weak transcription	Pancreas	Pancrea
45	chr1:180401400-180403400	Enhancers	HUES48 Cell Line	embryonic stem cell
46	chr1:180401400-180413800	Weak transcription	Small Intestine	intestine
47	chr1:180401400-180420200	Weak transcription	HSMM	muscle
48	chr1:180401400-180430400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr1:180401800-180403200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr1:180401800-180408800	Weak transcription	Fetal Kidney	kidney

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