Variant report

Variant	rs6739638
Chromosome Location	chr2:233576015-233576016
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:233574220..233576643-chr2:233581660..233584341,2	MCF-7	breast:
2	chr2:233562962..233565783-chr2:233575751..233577379,2	MCF-7	breast:

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs1022330	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1044480	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10933409	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10933411	0.81[EUR][1000 genomes]
rs10933412	0.81[EUR][1000 genomes]
rs11555646	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11676216	0.81[EUR][1000 genomes]
rs11679079	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11687128	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11690474	0.87[EUR][1000 genomes]
rs11692545	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12472839	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12474040	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12478564	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12694917	0.81[EUR][1000 genomes]
rs12987513	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12990821	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12991088	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12997185	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13003675	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13004406	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13007783	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13008942	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13011298	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13013142	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13021246	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13024793	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13035829	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13424351	0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1446308	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1446311	0.82[EUR][1000 genomes]
rs1801251	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1867778	0.89[EUR][1000 genomes]
rs2012221	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2305137	0.81[EUR][1000 genomes]
rs2592105	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2592113	0.91[EUR][1000 genomes]
rs2674839	0.91[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs283468	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs283469	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs283471	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs283474	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs283475	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs283476	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs283477	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs283479	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs283480	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs283481	0.87[AFR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs283484	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs283485	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs283486	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs33980184	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34880628	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35085837	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35212961	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35285732	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35362030	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35395584	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35621474	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs36007169	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3816334	0.81[EUR][1000 genomes]
rs3817311	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4452130	0.85[AFR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4458205	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4517962	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4973053	0.92[EUR][1000 genomes]
rs4973054	0.81[EUR][1000 genomes]
rs4973561	0.86[AFR][1000 genomes]
rs56777991	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6437074	0.81[EUR][1000 genomes]
rs66549961	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67013068	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6714245	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6717841	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6719061	0.88[AFR][1000 genomes]
rs6724117	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6732136	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6733151	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6738386	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6745879	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6746294	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6747645	0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6748027	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6761324	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71421663	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs737028	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7558609	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7562712	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7578299	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7587309	0.82[EUR][1000 genomes]
rs7591176	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7592717	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7606090	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs778166	0.94[EUR][1000 genomes]
rs9653383	0.92[EUR][1000 genomes]
rs9679089	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs983430	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs991873	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948470	chr2:233166262-233886732	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv1005123	chr2:233227729-233920152	Enhancers Strong transcription Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv536173	chr2:233227729-233920152	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:233563800-233582600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:233564000-233579600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr2:233564000-233589000	Weak transcription	NH-A	brain
4	chr2:233564200-233596400	Weak transcription	NHLF	lung
5	chr2:233564200-233613000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr2:233564800-233592800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr2:233565000-233612200	Weak transcription	Fetal Brain Male	brain
8	chr2:233565200-233589800	Weak transcription	HMEC	breast
9	chr2:233565200-233602000	Weak transcription	HUVEC	blood vessel
10	chr2:233565200-233606400	Weak transcription	Stomach Mucosa	stomach
11	chr2:233565400-233580200	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr2:233565400-233589800	Weak transcription	Hela-S3	cervix
13	chr2:233565400-233590000	Weak transcription	Colon Smooth Muscle	Colon
14	chr2:233565600-233641000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr2:233566000-233577000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr2:233566000-233578400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr2:233566000-233584600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr2:233566800-233612800	Weak transcription	Small Intestine	intestine
19	chr2:233567400-233576800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr2:233567600-233577800	Strong transcription	Fetal Muscle Trunk	muscle
21	chr2:233568000-233604400	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr2:233568200-233577400	Strong transcription	Primary T helper cells fromperipheralblood	blood
23	chr2:233568200-233583800	Strong transcription	HepG2	liver
24	chr2:233568200-233585400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
25	chr2:233568400-233576800	Strong transcription	Placenta	Placenta
26	chr2:233568400-233578000	Strong transcription	Fetal Intestine Large	intestine
27	chr2:233568400-233585000	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr2:233569000-233582000	Weak transcription	Brain Anterior Caudate	brain
29	chr2:233569000-233585600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr2:233569200-233579600	Weak transcription	Brain Substantia Nigra	brain
31	chr2:233569200-233589000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr2:233569200-233590000	Weak transcription	NHDF-Ad	bronchial
33	chr2:233569200-233615000	Weak transcription	Colonic Mucosa	Colon
34	chr2:233569400-233581000	Weak transcription	Pancreas	Pancrea
35	chr2:233569400-233612800	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr2:233569400-233615400	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr2:233570400-233581200	Weak transcription	Psoas Muscle	Psoas
38	chr2:233570600-233593400	Weak transcription	Aorta	Aorta
39	chr2:233570800-233582400	Weak transcription	Spleen	Spleen
40	chr2:233571000-233579400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr2:233571200-233576600	Weak transcription	HSMM	muscle
42	chr2:233571200-233577800	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr2:233571200-233581200	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr2:233571200-233582400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr2:233571200-233593600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr2:233571200-233598200	Weak transcription	Fetal Kidney	kidney
47	chr2:233571200-233627400	Weak transcription	Gastric	stomach
48	chr2:233571400-233577000	Weak transcription	Ovary	ovary
49	chr2:233571400-233581000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr2:233571400-233582400	Weak transcription	Left Ventricle	heart

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