Variant report

Variant	rs28803204
Chromosome Location	chr1:172877870-172877871
allele	A/C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11799419	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11808521	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12060919	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12063352	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12063378	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12065966	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12070646	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12077150	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12085777	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16845072	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16845082	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16845125	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1811833	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28394470	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28803577	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28865614	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56385939	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57440247	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57583107	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58489932	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60905087	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs983514	0.94[EUR][1000 genomes];1.00[ASN][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	nsv3587	chr1:172836950-172882218	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172865800-172878400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr1:172875200-172878600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr1:172876400-172878400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr1:172876400-172878400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr1:172876600-172878400	Weak transcription	HSMM	muscle
6	chr1:172876600-172878600	Weak transcription	HSMMtube	muscle
7	chr1:172876800-172878000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:172876800-172878400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr1:172876800-172878400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr1:172876800-172878400	Weak transcription	Hela-S3	cervix
11	chr1:172876800-172878400	Weak transcription	HMEC	breast
12	chr1:172876800-172878400	Weak transcription	NHLF	lung
13	chr1:172876800-172878400	Weak transcription	Osteobl	bone
14	chr1:172876800-172878600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr1:172876800-172878800	Enhancers	HUVEC	blood vessel
16	chr1:172877000-172878000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr1:172877000-172878200	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr1:172877000-172878200	Weak transcription	NH-A	brain
19	chr1:172877000-172878400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr1:172877000-172878400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr1:172877000-172878400	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr1:172877000-172878400	Weak transcription	A549	lung
23	chr1:172877000-172878400	Weak transcription	NHDF-Ad	bronchial
24	chr1:172877200-172878400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr1:172877200-172878400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr1:172877400-172878400	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links