Variant report

Variant	rs7568534
Chromosome Location	chr2:234315079-234315080
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:234314923..234315537-chr2:234351572..234352538,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1048603	1.00[CHB][hapmap]
rs11681604	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[EUR][1000 genomes]
rs2290464	0.89[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs2305542	0.89[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.83[YRI][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28562308	0.82[EUR][1000 genomes]
rs2971855	1.00[CHB][hapmap]
rs4663699	0.85[CHB][hapmap]
rs6431435	0.81[EUR][1000 genomes]
rs6714168	0.95[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap];0.87[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6722763	0.94[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap]
rs6759246	0.94[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap]
rs7566221	0.94[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap]
rs7576633	0.94[CEU][hapmap]
rs7580412	0.94[CEU][hapmap];0.85[CHB][hapmap];0.92[JPT][hapmap]
rs838546	1.00[CHB][hapmap]
rs838547	0.85[CHB][hapmap]
rs838554	0.85[CHB][hapmap]

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	nsv584700	chr2:234199401-234364426	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv529419	chr2:234229606-234670426	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:234270000-234322400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr2:234277600-234322200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr2:234294600-234318800	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr2:234295800-234318200	Weak transcription	K562	blood
5	chr2:234297200-234316800	Weak transcription	Aorta	Aorta
6	chr2:234297200-234317000	Weak transcription	Placenta	Placenta
7	chr2:234297200-234317000	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr2:234297200-234317200	Weak transcription	Pancreas	Pancrea
9	chr2:234297200-234317400	Weak transcription	Brain Angular Gyrus	brain
10	chr2:234297200-234317400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr2:234297200-234318600	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr2:234297200-234319000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr2:234297200-234319000	Weak transcription	Fetal Kidney	kidney
14	chr2:234297200-234319400	Weak transcription	Brain Hippocampus Middle	brain
15	chr2:234297200-234322000	Weak transcription	Hela-S3	cervix
16	chr2:234297200-234322200	Weak transcription	Brain Anterior Caudate	brain
17	chr2:234297400-234316200	Weak transcription	Fetal Lung	lung
18	chr2:234298000-234317200	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr2:234298600-234316200	Weak transcription	Colon Smooth Muscle	Colon
20	chr2:234299200-234316000	Weak transcription	Osteobl	bone
21	chr2:234299200-234319200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr2:234299200-234319200	Weak transcription	NHEK	skin
23	chr2:234300000-234318200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr2:234301200-234319800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr2:234301800-234315200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr2:234303000-234319000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr2:234305400-234317200	Weak transcription	Rectal Smooth Muscle	rectum
28	chr2:234305400-234319000	Weak transcription	HSMMtube	muscle
29	chr2:234305400-234319200	Weak transcription	HSMM	muscle
30	chr2:234306400-234318000	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr2:234307200-234320200	Strong transcription	Primary neutrophils fromperipheralblood	blood
32	chr2:234308200-234318600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr2:234308200-234318800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr2:234308400-234316400	Weak transcription	Ovary	ovary
35	chr2:234308400-234317000	Weak transcription	Right Atrium	heart
36	chr2:234308400-234317200	Weak transcription	Left Ventricle	heart
37	chr2:234308400-234322200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr2:234308600-234317000	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr2:234308800-234328400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr2:234309200-234316400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr2:234309200-234319000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr2:234309400-234317000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr2:234309400-234317400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr2:234309400-234319200	Weak transcription	Brain Cingulate Gyrus	brain
45	chr2:234309400-234322000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr2:234309600-234316000	Weak transcription	Liver	Liver
47	chr2:234309600-234317000	Weak transcription	Spleen	Spleen
48	chr2:234309600-234318200	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr2:234309600-234322200	Weak transcription	Esophagus	oesophagus
50	chr2:234309800-234316000	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links