Variant report

Variant	rs73175897
Chromosome Location	chr3:119783487-119783488
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	chr3:119779724..119782667-chr3:119783390..119785104,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11914561	0.86[AFR][1000 genomes]
rs11915898	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11916594	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11919783	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11923782	0.86[AFR][1000 genomes]
rs11923854	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11927667	0.86[AFR][1000 genomes]
rs1381841	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17204605	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17205095	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17810302	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55658250	0.95[AFR][1000 genomes]
rs56114552	0.91[AFR][1000 genomes]
rs6765004	0.91[AFR][1000 genomes]
rs73175844	0.95[AFR][1000 genomes]
rs73175849	0.86[AFR][1000 genomes]
rs73175853	0.91[AFR][1000 genomes]
rs73175858	0.83[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs73175860	0.91[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs73175862	0.87[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs73175863	0.95[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs73175864	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73175870	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73175873	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73175877	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73175879	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73175880	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73175886	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73175888	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73175891	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73177904	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73177905	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73177907	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7645180	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[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	nsv949589	chr3:119560606-120175917	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1001476	chr3:119575386-120075417	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
3	nsv536704	chr3:119575386-120075417	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119759400-119786200	Weak transcription	Hela-S3	cervix
2	chr3:119760200-119805400	Weak transcription	HMEC	breast
3	chr3:119764600-119812000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:119768800-119792800	Weak transcription	Fetal Stomach	stomach
5	chr3:119769200-119804400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:119769800-119784800	Weak transcription	Dnd41	blood
7	chr3:119771400-119809400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr3:119771800-119783600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr3:119771800-119805400	Weak transcription	NHEK	skin
10	chr3:119773200-119807600	Weak transcription	Right Ventricle	heart
11	chr3:119773800-119787800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:119774000-119789600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:119775800-119784200	Weak transcription	Fetal Intestine Small	intestine
14	chr3:119775800-119790400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:119775800-119796000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr3:119775800-119797600	Weak transcription	Fetal Thymus	thymus
17	chr3:119778400-119784400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:119778600-119786400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:119778800-119786000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr3:119778800-119787800	Weak transcription	Primary B cells from cord blood	blood
21	chr3:119778800-119791200	Weak transcription	Fetal Brain Female	brain
22	chr3:119778800-119796000	Weak transcription	NHDF-Ad	bronchial
23	chr3:119778800-119796400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:119779000-119788200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr3:119779200-119789200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr3:119779200-119789200	Weak transcription	Duodenum Mucosa	Duodenum
27	chr3:119779200-119789200	Weak transcription	A549	lung
28	chr3:119779400-119789200	Weak transcription	Brain Hippocampus Middle	brain
29	chr3:119779400-119804200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr3:119779400-119807400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr3:119779600-119784200	Weak transcription	Psoas Muscle	Psoas
32	chr3:119779600-119786400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr3:119779600-119787800	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr3:119779600-119789200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr3:119779600-119789600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr3:119779600-119789800	Weak transcription	Small Intestine	intestine
37	chr3:119779600-119793000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr3:119779600-119800200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr3:119779600-119807800	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr3:119779800-119783600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr3:119779800-119786200	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr3:119779800-119793000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr3:119780000-119783600	Weak transcription	GM12878-XiMat	blood
44	chr3:119780000-119784600	Weak transcription	Primary T cells from cord blood	blood
45	chr3:119780000-119786400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr3:119780000-119788200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr3:119780400-119785400	Weak transcription	Primary T helper cells fromperipheralblood	blood
48	chr3:119780600-119807800	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr3:119781600-119783800	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr3:119781800-119788000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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