Variant report

Variant	rs72956423
Chromosome Location	chr1:95220823-95220824
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:95219225..95221753-chr1:95222349..95224941,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-F3-2	chr1:95220694-95221480	NONHSAT004613

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11165239	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11165244	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11165250	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11165255	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11165257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12057287	1.00[EUR][1000 genomes]
rs12058606	1.00[EUR][1000 genomes]
rs12058766	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12059284	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12059919	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12060754	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12063764	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12077638	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12078728	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12079200	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12081570	1.00[EUR][1000 genomes]
rs12083162	1.00[EUR][1000 genomes]
rs12085965	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12086647	1.00[EUR][1000 genomes]
rs12086825	1.00[EUR][1000 genomes]
rs12089732	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12091334	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12091567	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12095617	1.00[EUR][1000 genomes]
rs3916208	1.00[EUR][1000 genomes]
rs3931243	1.00[EUR][1000 genomes]
rs56004399	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56075866	1.00[EUR][1000 genomes]
rs56088880	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56252039	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56989877	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58484675	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59906561	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60642625	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61371315	1.00[EUR][1000 genomes]
rs61634360	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6665321	1.00[EUR][1000 genomes]
rs72956408	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72956422	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72956425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72974472	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72974476	0.92[AFR][1000 genomes]
rs72974480	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101525	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101528	1.00[EUR][1000 genomes]
rs74101530	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101532	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101533	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101536	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101553	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101559	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101566	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74101887	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7540383	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001587	chr1:95027691-95318680	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95215400-95221400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr1:95218600-95221400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr1:95218600-95221800	Enhancers	Liver	Liver
4	chr1:95218600-95221800	Enhancers	Fetal Heart	heart
5	chr1:95218600-95222000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr1:95218600-95223800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr1:95218600-95224400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr1:95218800-95221000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr1:95218800-95221800	Enhancers	Muscle Satellite Cultured Cells	--
10	chr1:95218800-95223400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr1:95218800-95223800	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr1:95218800-95223800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr1:95218800-95223800	Enhancers	NH-A	brain
14	chr1:95218800-95224000	Enhancers	NHDF-Ad	bronchial
15	chr1:95218800-95224000	Enhancers	NHLF	lung
16	chr1:95219000-95221800	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr1:95219000-95222000	Enhancers	Duodenum Smooth Muscle	Duodenum
18	chr1:95219000-95222400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr1:95219000-95223200	Enhancers	Adipose Nuclei	Adipose
20	chr1:95219200-95221200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr1:95219200-95221400	Enhancers	Fetal Lung	lung
22	chr1:95219200-95221800	Enhancers	A549	lung
23	chr1:95219200-95222000	Enhancers	Dnd41	blood
24	chr1:95219400-95222400	Enhancers	Primary hematopoietic stem cells	blood
25	chr1:95219400-95222800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr1:95219400-95223000	Weak transcription	Fetal Muscle Trunk	muscle
27	chr1:95219400-95223000	Weak transcription	Psoas Muscle	Psoas
28	chr1:95219400-95223600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr1:95219600-95221200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr1:95219600-95221200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr1:95219600-95221200	Weak transcription	Brain Substantia Nigra	brain
32	chr1:95219600-95221200	Weak transcription	Fetal Muscle Leg	muscle
33	chr1:95219600-95221200	Weak transcription	Placenta	Placenta
34	chr1:95219600-95221400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr1:95219600-95221400	Enhancers	Primary neutrophils fromperipheralblood	blood
36	chr1:95219600-95221400	Weak transcription	Fetal Intestine Small	intestine
37	chr1:95219600-95221400	Weak transcription	Right Atrium	heart
38	chr1:95219600-95221400	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr1:95219600-95221600	Weak transcription	Lung	lung
40	chr1:95219600-95222200	Weak transcription	Pancreas	Pancrea
41	chr1:95219600-95223000	Weak transcription	Right Ventricle	heart
42	chr1:95219600-95223000	Weak transcription	Stomach Mucosa	stomach
43	chr1:95219600-95223400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr1:95219600-95223400	Weak transcription	Colon Smooth Muscle	Colon
45	chr1:95219600-95223600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr1:95219600-95223600	Weak transcription	Gastric	stomach
47	chr1:95219600-95225400	Enhancers	HepG2	liver
48	chr1:95219800-95223000	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr1:95220000-95221200	Enhancers	Monocytes-CD14+_RO01746	blood
50	chr1:95220000-95222000	Enhancers	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links