Variant report

Variant	rs6451329
Chromosome Location	chr5:37638980-37638981
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	chr5:37630392..37632021-chr5:37637856..37640438,2	MCF-7	breast:

Extended variants
information (count: 157 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:144)

rs_ID	r²[population]
rs10062316	0.86[CEU][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1013398	0.86[CEU][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10473055	0.88[EUR][1000 genomes]
rs10805627	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10941344	0.87[CEU][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10941345	0.86[CEU][hapmap];0.84[YRI][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10941347	0.86[CEU][hapmap];0.81[YRI][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10941348	0.87[CEU][hapmap];0.81[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10941349	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10941350	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10941351	0.91[CEU][hapmap];0.84[YRI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10941352	0.91[CEU][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10941353	0.91[CEU][hapmap];0.80[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10941356	0.91[CEU][hapmap];0.81[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10941358	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10941359	0.90[CHB][hapmap];0.86[JPT][hapmap];0.95[ASN][1000 genomes]
rs1126290	0.81[AMR][1000 genomes]
rs11739400	0.94[ASN][1000 genomes]
rs11740897	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11741504	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11742904	0.91[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11745980	0.94[ASN][1000 genomes]
rs11747548	0.91[CHB][hapmap];0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs11747900	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11749563	0.82[ASN][1000 genomes]
rs11750256	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11750837	0.90[ASN][1000 genomes]
rs11750840	0.90[ASN][1000 genomes]
rs11949124	0.81[AMR][1000 genomes]
rs11950295	0.91[CEU][hapmap];0.89[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11954727	0.87[CEU][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11957813	0.87[CEU][hapmap];0.81[YRI][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12187311	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12188106	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12189078	0.86[ASN][1000 genomes]
rs12332088	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12516955	0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12519307	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12520944	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12521063	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12654893	0.86[CEU][hapmap];0.84[YRI][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12655908	0.83[AMR][1000 genomes]
rs1356433	0.86[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1400851	0.86[CEU][hapmap];0.89[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1400853	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1400854	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1517785	0.87[CEU][hapmap];0.86[YRI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1517786	0.87[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1517788	0.86[CEU][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1554278	0.86[CEU][hapmap];0.84[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1589116	0.80[CEU][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1589119	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16903691	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1996427	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2176478	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2176479	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4242251	0.91[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4257799	0.83[ASN][1000 genomes]
rs4343860	0.91[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs4357062	0.82[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4371784	0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs4451075	0.86[ASN][1000 genomes]
rs4482927	0.91[ASN][1000 genomes]
rs4516881	0.91[ASN][1000 genomes]
rs4516882	0.90[ASN][1000 genomes]
rs4541680	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4582305	0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs4594879	0.86[ASN][1000 genomes]
rs4608942	0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs4618454	0.89[ASN][1000 genomes]
rs4869438	0.87[CEU][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4869439	0.87[CEU][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4869440	0.81[AMR][1000 genomes]
rs4869530	0.81[AMR][1000 genomes]
rs4869532	0.90[EUR][1000 genomes]
rs4869533	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4869535	0.91[CEU][hapmap];0.84[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4869536	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4869537	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4869538	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4869541	0.94[ASN][1000 genomes]
rs4869543	0.89[ASN][1000 genomes]
rs55708822	0.90[ASN][1000 genomes]
rs55732996	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55742744	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55849485	0.83[ASN][1000 genomes]
rs55960353	0.81[AMR][1000 genomes]
rs56007806	0.96[ASN][1000 genomes]
rs56051431	0.90[ASN][1000 genomes]
rs56051756	0.90[ASN][1000 genomes]
rs56100322	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56114410	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56234447	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs56288111	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56412589	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56832651	0.95[ASN][1000 genomes]
rs57015453	0.83[AMR][1000 genomes]
rs57817568	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs59378089	0.88[ASN][1000 genomes]
rs59409868	0.95[ASN][1000 genomes]
rs59696230	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs59829323	0.90[ASN][1000 genomes]
rs60589722	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61435914	0.83[AMR][1000 genomes]
rs61492379	0.86[ASN][1000 genomes]
rs62359058	0.83[AMR][1000 genomes]
rs62360876	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62360907	0.87[ASN][1000 genomes]
rs62360910	0.90[ASN][1000 genomes]
rs6451326	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6451330	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6451331	0.86[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6451333	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6451337	0.90[ASN][1000 genomes]
rs6451339	0.91[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs6863936	0.91[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6864924	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6865231	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6868428	0.91[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6871844	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6874891	0.91[CEU][hapmap];0.89[YRI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6876171	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6879890	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6884551	0.91[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs6884569	0.91[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs6885057	0.87[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6885329	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6887215	0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6887613	0.91[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6889616	0.87[CEU][hapmap];0.85[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72743184	0.83[ASN][1000 genomes]
rs7380215	0.81[AMR][1000 genomes]
rs7702644	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7703775	0.82[ASN][1000 genomes]
rs7704853	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7705015	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7705089	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7713017	0.87[CEU][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7715482	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7718557	0.86[CEU][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7725465	0.94[ASN][1000 genomes]
rs7727807	0.82[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9292656	0.82[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9292662	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026554	chr5:37112133-37734859	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
2	nsv537726	chr5:37112133-37734859	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
3	nsv949716	chr5:37179341-37967352	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
4	nsv1015983	chr5:37240827-37666601	Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers 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	40 gene(s)	inside rSNPs	diseases
5	nsv1023871	chr5:37330018-37804744	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	nsv537729	chr5:37330018-37804744	Weak transcription Flanking Active TSS Strong transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv432744	chr5:37374124-37743077	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv1034094	chr5:37406859-37666704	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv537731	chr5:37406859-37666704	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv597846	chr5:37430215-37813591	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv880890	chr5:37443079-37681646	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv1030250	chr5:37478163-37734859	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	nsv881383	chr5:37485316-37773877	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:37616200-37639400	Weak transcription	Fetal Heart	heart
2	chr5:37629400-37639000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr5:37629600-37640800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr5:37629600-37640800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr5:37629600-37641600	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr5:37630200-37645200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr5:37630400-37640600	Weak transcription	Brain Anterior Caudate	brain
8	chr5:37630400-37645200	Weak transcription	Adipose Nuclei	Adipose
9	chr5:37632200-37639000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr5:37633200-37644000	Weak transcription	Primary B cells from cord blood	blood
11	chr5:37635200-37643200	Weak transcription	Primary T cells from cord blood	blood
12	chr5:37637600-37639600	Enhancers	Osteobl	bone
13	chr5:37637600-37640800	Enhancers	Muscle Satellite Cultured Cells	--
14	chr5:37637800-37639200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr5:37638000-37639000	Weak transcription	NH-A	brain
16	chr5:37638000-37639600	Weak transcription	Colon Smooth Muscle	Colon
17	chr5:37638200-37639400	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr5:37638200-37642200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr5:37638600-37640000	Enhancers	NHDF-Ad	bronchial
20	chr5:37638600-37640800	Enhancers	A549	lung
21	chr5:37638800-37639400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr5:37638800-37639800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr5:37638800-37639800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr5:37638800-37640600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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