Variant report

Variant	rs12058536
Chromosome Location	chr1:57027789-57027790
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11206845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11206846	0.94[AFR][1000 genomes]
rs11800865	0.87[AFR][1000 genomes]
rs11800883	0.95[AFR][1000 genomes]
rs11810635	1.00[AFR][1000 genomes]
rs12058459	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12059747	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12059843	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12070247	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12070557	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12090895	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12098117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1572058	0.81[AFR][1000 genomes]
rs17114119	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17114125	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1953114	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28365912	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28673510	1.00[AFR][1000 genomes]
rs41446844	0.95[AFR][1000 genomes]
rs56332336	0.97[AFR][1000 genomes]
rs6661359	1.00[AFR][1000 genomes]
rs6687908	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6702052	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72903425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7539051	0.84[AFR][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	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57007400-57028400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr1:57009600-57028000	Weak transcription	Fetal Kidney	kidney
3	chr1:57016000-57038600	Weak transcription	HSMMtube	muscle
4	chr1:57017400-57035400	Weak transcription	Esophagus	oesophagus
5	chr1:57017400-57035400	Weak transcription	Fetal Thymus	thymus
6	chr1:57017400-57039400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:57017800-57028200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr1:57017800-57028600	Weak transcription	Pancreas	Pancrea
9	chr1:57017800-57040800	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr1:57019200-57027800	Weak transcription	Fetal Brain Female	brain
11	chr1:57019200-57028400	Weak transcription	Aorta	Aorta
12	chr1:57019200-57030400	Weak transcription	HSMM	muscle
13	chr1:57019400-57030000	Weak transcription	Osteobl	bone
14	chr1:57019400-57030200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr1:57019600-57027800	Weak transcription	Fetal Brain Male	brain
16	chr1:57019600-57028000	Weak transcription	Fetal Lung	lung
17	chr1:57019600-57028400	Enhancers	Liver	Liver
18	chr1:57019800-57031400	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr1:57020000-57028000	Weak transcription	Colon Smooth Muscle	Colon
20	chr1:57020000-57028800	Weak transcription	Stomach Mucosa	stomach
21	chr1:57020200-57031800	Weak transcription	Placenta	Placenta
22	chr1:57020400-57029000	Weak transcription	Fetal Stomach	stomach
23	chr1:57021200-57027800	Weak transcription	NHLF	lung
24	chr1:57021400-57028600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr1:57021400-57028600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr1:57021400-57032800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr1:57021800-57027800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr1:57022000-57030400	Weak transcription	Primary B cells from peripheral blood	blood
29	chr1:57022600-57028600	Weak transcription	Spleen	Spleen
30	chr1:57023800-57027800	Weak transcription	Adipose Nuclei	Adipose
31	chr1:57023800-57028600	Enhancers	HepG2	liver
32	chr1:57023800-57030400	Enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr1:57023800-57033000	Enhancers	Brain Hippocampus Middle	brain
34	chr1:57024200-57028000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr1:57024200-57028200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr1:57024200-57029000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr1:57024200-57030000	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr1:57024200-57030600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr1:57024200-57030600	Weak transcription	Fetal Muscle Leg	muscle
40	chr1:57024200-57030800	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr1:57025000-57028200	Weak transcription	Brain Angular Gyrus	brain
42	chr1:57025400-57028600	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr1:57025600-57029800	Enhancers	HUES48 Cell Line	embryonic stem cell
44	chr1:57025600-57030600	Enhancers	ES-I3 Cell Line	embryonic stem cell
45	chr1:57025600-57040000	Weak transcription	Fetal Muscle Trunk	muscle
46	chr1:57026000-57027800	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr1:57026000-57028600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr1:57026000-57033200	Enhancers	Fetal Intestine Large	intestine
49	chr1:57026200-57027800	Weak transcription	Brain Substantia Nigra	brain
50	chr1:57026200-57032200	Enhancers	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links