Variant report

Variant	rs6668693
Chromosome Location	chr1:172875618-172875619
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10798242	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10798244	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10912491	0.97[ASN][1000 genomes]
rs10912497	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10912501	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10912502	0.93[EUR][1000 genomes]
rs12025176	0.97[ASN][1000 genomes]
rs12035082	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12037203	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12037606	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12088638	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12402215	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12407389	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12409216	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12410129	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12411259	0.81[ASN][1000 genomes]
rs12565596	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12567579	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12728265	0.95[ASN][1000 genomes]
rs12748081	0.97[ASN][1000 genomes]
rs1883475	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1894636	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2051629	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2187893	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2206363	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2206365	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2206366	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2213746	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2227203	0.82[ASN][1000 genomes]
rs2422260	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35715673	0.97[ASN][1000 genomes]
rs4145468	0.97[ASN][1000 genomes]
rs4145469	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4916199	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4916285	0.81[ASN][1000 genomes]
rs4916286	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4916287	0.90[EUR][1000 genomes]
rs4916288	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4916289	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4916290	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6674470	0.80[EUR][1000 genomes]
rs6688532	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7539319	0.82[ASN][1000 genomes]
rs7539951	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs926472	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs926473	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs926474	0.82[EUR][1000 genomes];0.82[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:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172865800-172878400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr1:172869600-172876800	Enhancers	NHLF	lung
3	chr1:172870800-172875800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr1:172871000-172876600	Enhancers	HSMM	muscle
5	chr1:172871200-172876200	Enhancers	HUVEC	blood vessel
6	chr1:172871200-172877000	Enhancers	NHDF-Ad	bronchial
7	chr1:172871200-172877200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr1:172871400-172876400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr1:172871400-172876800	Enhancers	Osteobl	bone
10	chr1:172871400-172877000	Enhancers	Muscle Satellite Cultured Cells	--
11	chr1:172871600-172877000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr1:172872200-172876400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr1:172872200-172876600	Enhancers	HSMMtube	muscle
14	chr1:172872200-172876800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr1:172872200-172876800	Enhancers	HMEC	breast
16	chr1:172872400-172876600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr1:172872600-172877000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr1:172872800-172876800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr1:172873600-172876000	Enhancers	NH-A	brain
20	chr1:172873600-172876200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr1:172874000-172876400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr1:172874600-172876000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr1:172874600-172876800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
24	chr1:172874800-172875800	Weak transcription	Thymus	Thymus
25	chr1:172874800-172876000	Enhancers	Primary T killer memory cells from peripheral blood	blood
26	chr1:172874800-172876000	Weak transcription	A549	lung
27	chr1:172874800-172876000	Enhancers	Dnd41	blood
28	chr1:172874800-172876200	Enhancers	Primary T cells from cord blood	blood
29	chr1:172874800-172877000	Enhancers	Primary B cells from peripheral blood	blood
30	chr1:172874800-172877000	Enhancers	NHEK	skin
31	chr1:172875000-172876000	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr1:172875000-172877000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
33	chr1:172875000-172877000	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr1:172875200-172876400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr1:172875200-172876800	Enhancers	Primary hematopoietic stem cells short term culture	blood
36	chr1:172875200-172876800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr1:172875200-172876800	Enhancers	Primary T helper cells fromperipheralblood	blood
38	chr1:172875200-172876800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
39	chr1:172875200-172876800	Enhancers	Hela-S3	cervix
40	chr1:172875200-172877000	Enhancers	Primary B cells from cord blood	blood
41	chr1:172875200-172877000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
42	chr1:172875200-172878600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr1:172875400-172876000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr1:172875400-172877000	Enhancers	Primary hematopoietic stem cells	blood
45	chr1:172875600-172875800	Enhancers	Rectal Mucosa Donor 29	rectum
46	chr1:172875600-172876800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links