Variant report

Variant	rs73832789
Chromosome Location	chr3:50037609-50037610
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	chr3:50037509..50039299-chr3:50062748..50064702,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12107362	1.00[AMR][1000 genomes]
rs12107386	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17050905	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17050918	0.81[AFR][1000 genomes]
rs17050921	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17050924	1.00[AMR][1000 genomes]
rs17849464	1.00[AMR][1000 genomes]
rs2229648	1.00[AMR][1000 genomes]
rs28424211	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55750059	1.00[AMR][1000 genomes]
rs55913179	1.00[AMR][1000 genomes]
rs56263643	1.00[AMR][1000 genomes]
rs56297242	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57347154	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58095278	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58363428	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58688714	1.00[AMR][1000 genomes]
rs59822920	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60065407	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60234882	1.00[AMR][1000 genomes]
rs60844685	1.00[AMR][1000 genomes]
rs61156427	0.89[AFR][1000 genomes]
rs61435065	1.00[AMR][1000 genomes]
rs73832783	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832800	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832801	1.00[AMR][1000 genomes]
rs73834118	1.00[AMR][1000 genomes]
rs73834119	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834120	1.00[AMR][1000 genomes]
rs73834125	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834127	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835208	1.00[AMR][1000 genomes]
rs73835216	1.00[AMR][1000 genomes]
rs73835217	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876767	chr3:49918751-50153356	Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
2	nsv834689	chr3:49962930-50085119	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv1012903	chr3:49978765-50071878	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv460527	chr3:50028385-50153356	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv590249	chr3:50028385-50153356	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49978800-50041000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:49998000-50078200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr3:49998400-50078600	Weak transcription	K562	blood
4	chr3:50002200-50057000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr3:50004400-50044200	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr3:50005200-50046400	Weak transcription	Psoas Muscle	Psoas
7	chr3:50005200-50050600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr3:50006000-50064000	Weak transcription	Stomach Mucosa	stomach
9	chr3:50006200-50040800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:50008600-50050400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr3:50010800-50087000	Weak transcription	NHLF	lung
12	chr3:50011000-50041000	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr3:50011000-50046400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr3:50011000-50046400	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr3:50011000-50048400	Weak transcription	A549	lung
16	chr3:50011000-50051000	Weak transcription	Pancreas	Pancrea
17	chr3:50011000-50078400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr3:50011000-50091600	Weak transcription	Colonic Mucosa	Colon
19	chr3:50012400-50049000	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr3:50015200-50092000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr3:50015400-50046400	Weak transcription	Fetal Kidney	kidney
22	chr3:50015800-50041000	Weak transcription	HSMMtube	muscle
23	chr3:50016000-50040800	Weak transcription	Brain Substantia Nigra	brain
24	chr3:50018800-50043600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr3:50022200-50046400	Weak transcription	Gastric	stomach
26	chr3:50022600-50041200	Weak transcription	Aorta	Aorta
27	chr3:50027600-50040000	Strong transcription	Primary T cells from cord blood	blood
28	chr3:50028000-50056400	Weak transcription	Ovary	ovary
29	chr3:50028800-50082600	Weak transcription	Right Ventricle	heart
30	chr3:50029200-50041000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr3:50029800-50050800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr3:50030200-50065600	Weak transcription	Fetal Heart	heart
33	chr3:50031000-50048000	Strong transcription	Fetal Thymus	thymus
34	chr3:50031200-50039800	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr3:50031400-50039800	Strong transcription	Dnd41	blood
36	chr3:50031600-50039600	Strong transcription	Liver	Liver
37	chr3:50031600-50039800	Strong transcription	Primary monocytes fromperipheralblood	blood
38	chr3:50031800-50039600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr3:50031800-50039800	Strong transcription	Primary B cells from cord blood	blood
40	chr3:50032000-50040200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:50033400-50039600	Strong transcription	Primary T helper cells PMA-I stimulated	--
42	chr3:50033400-50039800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr3:50033400-50041400	Strong transcription	Fetal Lung	lung
44	chr3:50033600-50038200	Weak transcription	Fetal Brain Female	brain
45	chr3:50033600-50039000	Weak transcription	Fetal Brain Male	brain
46	chr3:50033800-50051000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr3:50034800-50039600	Strong transcription	Primary T helper cells fromperipheralblood	blood
48	chr3:50035000-50040000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
49	chr3:50035200-50058200	Weak transcription	Esophagus	oesophagus
50	chr3:50035600-50039600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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