Variant report

Variant	rs3772983
Chromosome Location	chr3:69155477-69155478
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	chr3:69133410..69135545-chr3:69153469..69155748,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000144746	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1051901	1.00[EUR][1000 genomes]
rs1131960	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12054346	1.00[EUR][1000 genomes]
rs17005366	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3772980	1.00[EUR][1000 genomes]
rs3796214	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3821564	1.00[EUR][1000 genomes]
rs56152276	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56194306	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56280964	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57159802	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58277851	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59090383	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60474520	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61086164	0.98[ASN][1000 genomes]
rs72924853	1.00[EUR][1000 genomes]
rs72924854	1.00[EUR][1000 genomes]
rs73835715	0.81[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs73835716	0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs73835722	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73835726	1.00[EUR][1000 genomes]
rs73835727	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73835728	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73835729	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7617775	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7621394	1.00[EUR][1000 genomes]
rs7621929	1.00[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	nsv876933	chr3:69059023-69227379	Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv876934	chr3:69111512-69166895	Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69135800-69155800	Weak transcription	Fetal Kidney	kidney
2	chr3:69136800-69156400	Weak transcription	Fetal Brain Male	brain
3	chr3:69142000-69160400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:69143600-69160200	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr3:69145600-69160200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr3:69145800-69160200	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:69146200-69160200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:69147400-69160200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr3:69148600-69155800	Strong transcription	Primary B cells from peripheral blood	blood
10	chr3:69148800-69155600	Strong transcription	Primary neutrophils fromperipheralblood	blood
11	chr3:69148800-69155600	Strong transcription	GM12878-XiMat	blood
12	chr3:69148800-69155800	Strong transcription	Duodenum Mucosa	Duodenum
13	chr3:69148800-69155800	Strong transcription	Dnd41	blood
14	chr3:69150400-69155800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:69150600-69155600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr3:69150600-69155800	Strong transcription	Rectal Mucosa Donor 31	rectum
17	chr3:69150800-69155600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr3:69150800-69155800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr3:69150800-69155800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:69151000-69155600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
21	chr3:69151000-69155800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:69151200-69157800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr3:69151800-69155600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr3:69151800-69155600	Weak transcription	Fetal Stomach	stomach
25	chr3:69151800-69155800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr3:69151800-69155800	Weak transcription	HepG2	liver
27	chr3:69151800-69156400	Weak transcription	Fetal Intestine Small	intestine
28	chr3:69152000-69157000	Weak transcription	Stomach Mucosa	stomach
29	chr3:69152000-69160200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr3:69152800-69157000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr3:69153200-69155800	Genic enhancers	Primary monocytes fromperipheralblood	blood
32	chr3:69153200-69155800	Genic enhancers	Brain Hippocampus Middle	brain
33	chr3:69153200-69158000	Weak transcription	Psoas Muscle	Psoas
34	chr3:69153400-69155600	Genic enhancers	Muscle Satellite Cultured Cells	--
35	chr3:69153600-69155800	Genic enhancers	HSMM	muscle
36	chr3:69153600-69155800	Strong transcription	HUVEC	blood vessel
37	chr3:69153600-69155800	Genic enhancers	Osteobl	bone
38	chr3:69153600-69156000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr3:69153600-69160000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr3:69153800-69155600	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr3:69153800-69155800	Strong transcription	Primary T helper cells PMA-I stimulated	--
42	chr3:69153800-69156600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr3:69153800-69160200	Weak transcription	Right Ventricle	heart
44	chr3:69153800-69162400	Weak transcription	HMEC	breast
45	chr3:69153800-69165800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr3:69153800-69168000	Weak transcription	Fetal Muscle Trunk	muscle
47	chr3:69154000-69155600	Weak transcription	Lung	lung
48	chr3:69154000-69155600	Weak transcription	Ovary	ovary
49	chr3:69154000-69155600	Weak transcription	Small Intestine	intestine
50	chr3:69154000-69155800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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