Variant report

Variant	rs17051799
Chromosome Location	chr3:51499410-51499411
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs12330534	1.00[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12493978	0.88[YRI][hapmap]
rs13314120	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13316894	1.00[MEX][hapmap]
rs13321674	1.00[AMR][1000 genomes]
rs13325153	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.94[YRI][hapmap]
rs13433729	0.85[AMR][1000 genomes]
rs1480366	1.00[ASW][hapmap]
rs17051685	1.00[ASW][hapmap]
rs17051802	1.00[ASW][hapmap]
rs17051832	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17081501	1.00[AMR][1000 genomes]
rs1842394	0.82[YRI][hapmap]
rs2170177	1.00[ASW][hapmap]
rs28421789	0.85[AMR][1000 genomes]
rs28452990	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28457212	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28653367	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2883900	0.85[AMR][1000 genomes]
rs4468966	0.89[YRI][hapmap]
rs4549265	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4974112	1.00[ASW][hapmap]
rs56942057	0.85[AMR][1000 genomes]
rs58807639	1.00[ASN][1000 genomes]
rs59525691	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60823123	1.00[AMR][1000 genomes]
rs61737032	0.85[AMR][1000 genomes]
rs6779163	1.00[MEX][hapmap]
rs6782997	1.00[MEX][hapmap]
rs6806124	1.00[MEX][hapmap]
rs72951441	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951452	1.00[AMR][1000 genomes]
rs72951472	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951485	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951486	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72953413	0.85[AMR][1000 genomes]
rs72953417	1.00[AMR][1000 genomes]
rs72953423	0.85[AMR][1000 genomes]
rs72953429	0.85[AMR][1000 genomes]
rs751076	0.89[YRI][hapmap]
rs753452	1.00[ASN][1000 genomes]
rs880478	0.89[YRI][hapmap]
rs904144	0.85[AMR][1000 genomes]
rs9311470	0.85[AMR][1000 genomes]
rs9808940	0.85[AMR][1000 genomes]
rs9809757	1.00[AMR][1000 genomes]
rs9812008	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9815684	1.00[AMR][1000 genomes]
rs9816075	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9817077	0.89[YRI][hapmap]
rs9817872	0.89[YRI][hapmap]
rs9819195	0.89[YRI][hapmap]
rs9824779	1.00[AMR][1000 genomes]
rs9826664	0.85[AMR][1000 genomes]
rs9827665	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9827917	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9828325	1.00[MEX][hapmap]
rs9829057	0.89[YRI][hapmap]
rs9838294	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9838942	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9838994	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9839516	0.85[AMR][1000 genomes]
rs9839608	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9840331	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9842066	0.85[AMR][1000 genomes]
rs9844541	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9855214	1.00[MEX][hapmap]
rs9855809	0.85[AMR][1000 genomes]
rs9856134	0.83[YRI][hapmap]
rs9857893	1.00[AMR][1000 genomes]
rs9858497	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9864213	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9866513	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9866604	0.85[AMR][1000 genomes]
rs9870147	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9875460	1.00[AMR][1000 genomes]
rs9878053	1.00[MEX][hapmap]
rs9880050	0.85[AMR][1000 genomes]
rs9880909	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9881402	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9881844	1.00[AMR][1000 genomes]
rs9882601	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9990341	0.82[AFR][1000 genomes];1.00[AMR][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	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51458200-51515000	Weak transcription	Fetal Brain Male	brain
2	chr3:51458400-51500200	Weak transcription	Psoas Muscle	Psoas
3	chr3:51458800-51503800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:51467800-51502000	Weak transcription	HMEC	breast
5	chr3:51467800-51524000	Weak transcription	Small Intestine	intestine
6	chr3:51475800-51500400	Weak transcription	K562	blood
7	chr3:51476000-51499800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr3:51476000-51506000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:51476200-51500000	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr3:51476200-51500200	Weak transcription	Osteobl	bone
11	chr3:51477200-51515000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:51485000-51500000	Weak transcription	A549	lung
13	chr3:51490400-51515000	Weak transcription	Stomach Mucosa	stomach
14	chr3:51491200-51500200	Weak transcription	NH-A	brain
15	chr3:51491400-51532800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr3:51495000-51532600	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr3:51495400-51505800	Weak transcription	NHLF	lung
18	chr3:51495400-51513200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:51495600-51505200	Strong transcription	Primary neutrophils fromperipheralblood	blood
20	chr3:51495600-51505800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr3:51495600-51508800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr3:51495600-51509600	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr3:51495600-51509600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
24	chr3:51495800-51500600	Strong transcription	Fetal Kidney	kidney
25	chr3:51495800-51502200	Strong transcription	Thymus	Thymus
26	chr3:51495800-51502400	Strong transcription	Fetal Muscle Leg	muscle
27	chr3:51495800-51505800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:51495800-51506600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr3:51495800-51506600	Strong transcription	Adipose Nuclei	Adipose
30	chr3:51495800-51507000	Strong transcription	HUES6 Cell Line	embryonic stem cell
31	chr3:51495800-51508400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr3:51495800-51508800	Strong transcription	Duodenum Mucosa	Duodenum
33	chr3:51495800-51510400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr3:51495800-51510400	Strong transcription	Primary B cells from peripheral blood	blood
35	chr3:51495800-51510400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr3:51495800-51510600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr3:51495800-51518200	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr3:51495800-51518200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr3:51495800-51526800	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr3:51495800-51531800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:51496000-51502200	Strong transcription	Fetal Intestine Large	intestine
42	chr3:51496000-51506000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr3:51496000-51517800	Strong transcription	Fetal Muscle Trunk	muscle
44	chr3:51496000-51518400	Strong transcription	Fetal Stomach	stomach
45	chr3:51496000-51531800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:51496200-51499600	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr3:51496200-51500400	Strong transcription	HSMMtube	muscle
48	chr3:51496200-51501000	Strong transcription	H1 Cell Line	embryonic stem cell
49	chr3:51496200-51501000	Strong transcription	HUES48 Cell Line	embryonic stem cell
50	chr3:51496200-51501000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links