Variant report

Variant	rs11579038
Chromosome Location	chr1:56299780-56299781
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11576242	0.80[EUR][1000 genomes]
rs11578335	0.80[EUR][1000 genomes]
rs11578498	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11581648	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11583537	0.80[EUR][1000 genomes]
rs11586123	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11587235	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11589166	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11590983	0.80[EUR][1000 genomes]
rs11800773	0.80[EUR][1000 genomes]
rs12062107	0.80[ASN][1000 genomes]
rs12081543	0.80[EUR][1000 genomes]
rs17112873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17112980	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17113009	0.95[EUR][1000 genomes]
rs17113019	0.95[EUR][1000 genomes]
rs34631693	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs41285920	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4450055	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4565759	0.80[EUR][1000 genomes]
rs4595404	0.95[EUR][1000 genomes]
rs56663249	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs56794337	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57046577	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57145918	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58221753	0.95[EUR][1000 genomes]
rs59699301	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61064012	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61497682	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6588578	0.80[EUR][1000 genomes]
rs6678002	0.84[EUR][1000 genomes]
rs74072586	0.80[EUR][1000 genomes]
rs74072587	0.80[EUR][1000 genomes]
rs7527177	0.81[ASN][1000 genomes]
rs7538057	0.85[AMR][1000 genomes];0.80[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	nsv829926	chr1:56188492-56360745	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56295200-56320400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr1:56297400-56301400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr1:56298000-56300800	Enhancers	Fetal Lung	lung
4	chr1:56298000-56302000	Enhancers	Fetal Stomach	stomach
5	chr1:56298400-56300000	Enhancers	Fetal Brain Male	brain
6	chr1:56298600-56299800	Enhancers	Fetal Brain Female	brain
7	chr1:56298600-56299800	Enhancers	NHLF	lung
8	chr1:56298600-56300000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr1:56298600-56300000	Enhancers	Fetal Muscle Leg	muscle
10	chr1:56298600-56300400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr1:56298600-56300800	Enhancers	Colon Smooth Muscle	Colon
12	chr1:56298800-56300000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr1:56298800-56300200	Enhancers	Osteobl	bone
14	chr1:56298800-56302000	Weak transcription	Aorta	Aorta
15	chr1:56299000-56300000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr1:56299000-56300200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:56299000-56300200	Enhancers	Muscle Satellite Cultured Cells	--
18	chr1:56299000-56300400	Enhancers	Rectal Smooth Muscle	rectum
19	chr1:56299200-56299800	Flanking Active TSS	NHDF-Ad	bronchial
20	chr1:56299200-56300000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr1:56299200-56300000	Enhancers	Stomach Smooth Muscle	stomach
22	chr1:56299400-56300000	Enhancers	Fetal Kidney	kidney
23	chr1:56299600-56300200	Enhancers	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links