Variant report

Variant	rs17112873
Chromosome Location	chr1:56289619-56289620
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
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];0.90[ASN][1000 genomes]
rs11579038	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11581648	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[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];0.93[ASN][1000 genomes]
rs11587235	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11589166	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11590983	0.80[EUR][1000 genomes]
rs11800773	0.80[EUR][1000 genomes]
rs12081543	0.80[EUR][1000 genomes]
rs17112980	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[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]
rs41331246	0.81[ASN][1000 genomes]
rs4450055	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4565759	0.80[EUR][1000 genomes]
rs4595404	0.95[EUR][1000 genomes]
rs56663249	0.84[EUR][1000 genomes]
rs56794337	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57046577	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57145918	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58221753	0.95[EUR][1000 genomes]
rs59699301	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61064012	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61497682	0.86[EUR][1000 genomes];0.84[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	0.82[ASN][1000 genomes]
rs7538057	0.85[AMR][1000 genomes];0.80[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	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
2	nsv1002958	chr1:56278696-56295112	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56280400-56291000	Weak transcription	Colon Smooth Muscle	Colon
2	chr1:56283000-56293000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr1:56283200-56292400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr1:56286800-56290200	Enhancers	Placenta Amnion	Placenta Amnion
5	chr1:56287800-56290600	Weak transcription	Fetal Kidney	kidney
6	chr1:56287800-56291000	Enhancers	Fetal Intestine Large	intestine
7	chr1:56288000-56290200	Enhancers	Fetal Intestine Small	intestine
8	chr1:56288000-56292000	Enhancers	Fetal Lung	lung
9	chr1:56288400-56290400	Enhancers	NHDF-Ad	bronchial
10	chr1:56288600-56289800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr1:56288600-56289800	Enhancers	NHLF	lung
12	chr1:56289000-56289800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr1:56289000-56289800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr1:56289000-56289800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr1:56289000-56289800	Enhancers	Muscle Satellite Cultured Cells	--
16	chr1:56289000-56289800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr1:56289000-56289800	Enhancers	Placenta	Placenta
18	chr1:56289000-56289800	Enhancers	HSMMtube	muscle
19	chr1:56289000-56289800	Enhancers	NH-A	brain
20	chr1:56289200-56289800	Enhancers	A549	lung
21	chr1:56289400-56289800	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr1:56289400-56290200	Enhancers	HepG2	liver
23	chr1:56289400-56292800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr1:56289600-56292000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr1:56289600-56292000	Weak transcription	Fetal Stomach	stomach
26	chr1:56289600-56292400	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links