Variant report

Variant	rs9834751
Chromosome Location	chr3:160808810-160808811
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	chr3:160806758..160810254-chr3:160813169..160817667,5	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs1045448	0.96[EUR][1000 genomes]
rs12107243	0.88[EUR][1000 genomes]
rs12488621	0.86[EUR][1000 genomes]
rs12494133	0.80[EUR][1000 genomes]
rs13314089	0.85[ASN][1000 genomes]
rs13319969	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13320863	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1599380	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1599384	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1599391	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16831868	0.88[EUR][1000 genomes]
rs1947685	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1947686	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2231252	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2279106	0.88[EUR][1000 genomes]
rs28623696	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35152606	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35440670	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35446590	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35599916	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs36105583	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4339146	0.86[EUR][1000 genomes]
rs4443220	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4465984	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441352	0.88[EUR][1000 genomes]
rs6441353	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6763838	0.87[EUR][1000 genomes]
rs6795977	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs68159406	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs721657	0.88[EUR][1000 genomes]
rs731363	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7429731	0.86[EUR][1000 genomes]
rs7630896	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7634115	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7649954	0.87[EUR][1000 genomes]
rs898683	0.87[EUR][1000 genomes]
rs898684	0.87[EUR][1000 genomes]
rs898685	0.87[EUR][1000 genomes]
rs9290067	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9290068	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9810737	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9813136	0.93[EUR][1000 genomes]
rs9817747	0.88[ASN][1000 genomes]
rs9818516	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9824308	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9824501	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9828205	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9829882	0.96[EUR][1000 genomes]
rs9830139	0.96[EUR][1000 genomes]
rs9836074	0.82[EUR][1000 genomes]
rs9840389	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9851292	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9861850	1.00[EUR][1000 genomes]
rs9862258	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9864145	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv877704	chr3:160806859-160836006	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9834751	B3GALNT1	cis	Artery Tibial	GTEx

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160780800-160821400	Weak transcription	Fetal Brain Male	brain
2	chr3:160781800-160822000	Weak transcription	Thymus	Thymus
3	chr3:160787000-160822000	Weak transcription	Primary T cells from cord blood	blood
4	chr3:160787200-160818800	Weak transcription	Brain Germinal Matrix	brain
5	chr3:160789600-160818800	Weak transcription	Esophagus	oesophagus
6	chr3:160796000-160817400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:160796200-160821800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:160797000-160822000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr3:160797600-160817200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:160798600-160821800	Weak transcription	Brain Angular Gyrus	brain
11	chr3:160799800-160821800	Weak transcription	NHLF	lung
12	chr3:160799800-160822000	Weak transcription	HMEC	breast
13	chr3:160800200-160818200	Weak transcription	Fetal Intestine Small	intestine
14	chr3:160800200-160820000	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:160800400-160813400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr3:160800400-160817200	Weak transcription	Brain Hippocampus Middle	brain
17	chr3:160800400-160818800	Weak transcription	Gastric	stomach
18	chr3:160800400-160822200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr3:160800400-160822400	Weak transcription	Spleen	Spleen
20	chr3:160801000-160821800	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr3:160801200-160822000	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr3:160801600-160816600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr3:160801600-160818800	Weak transcription	Placenta	Placenta
24	chr3:160801600-160821800	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr3:160802600-160821400	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr3:160802600-160822000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr3:160802600-160822400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr3:160802800-160822000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr3:160803400-160819200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr3:160803400-160822000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr3:160803800-160822000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:160804400-160811800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr3:160804400-160816600	Weak transcription	Fetal Brain Female	brain
34	chr3:160804400-160818200	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr3:160804400-160822000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr3:160804400-160822000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr3:160804600-160812800	Weak transcription	Aorta	Aorta
38	chr3:160804600-160813000	Weak transcription	Fetal Intestine Large	intestine
39	chr3:160804600-160816200	Weak transcription	Ovary	ovary
40	chr3:160804600-160816400	Weak transcription	Stomach Smooth Muscle	stomach
41	chr3:160804600-160816600	Weak transcription	Brain Cingulate Gyrus	brain
42	chr3:160804600-160817200	Weak transcription	Brain Anterior Caudate	brain
43	chr3:160804600-160820400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr3:160804600-160821800	Weak transcription	Brain Substantia Nigra	brain
45	chr3:160804600-160821800	Weak transcription	HUVEC	blood vessel
46	chr3:160804600-160822200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr3:160804800-160815400	Weak transcription	Left Ventricle	heart
48	chr3:160805400-160809200	Weak transcription	Fetal Heart	heart
49	chr3:160805800-160815400	Weak transcription	Right Ventricle	heart
50	chr3:160805800-160818800	Weak transcription	Lung	lung

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