Variant report

Variant	rs10935512
Chromosome Location	chr3:98583622-98583623
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs1036674	1.00[AMR][1000 genomes]
rs1095913	1.00[AMR][1000 genomes]
rs1095914	1.00[AMR][1000 genomes]
rs1351496	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1383908	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1383911	1.00[AMR][1000 genomes]
rs1440157	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1531736	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1600788	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1822019	1.00[AMR][1000 genomes]
rs1972432	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2099738	1.00[AMR][1000 genomes]
rs2119189	1.00[AMR][1000 genomes]
rs2128053	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2133575	0.86[AFR][1000 genomes]
rs2173598	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2439227	1.00[AMR][1000 genomes]
rs2439230	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2439233	1.00[AMR][1000 genomes]
rs2439234	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2439235	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2448985	1.00[AMR][1000 genomes]
rs2449047	1.00[AMR][1000 genomes]
rs2454672	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2454675	1.00[AMR][1000 genomes]
rs2454681	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2454683	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2454690	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2470828	1.00[AMR][1000 genomes]
rs2470839	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2470850	1.00[AMR][1000 genomes]
rs2470856	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2470858	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2470866	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2470868	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2470874	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2470883	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2470884	0.86[AFR][1000 genomes]
rs278375	1.00[AMR][1000 genomes]
rs278377	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs278378	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs278384	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs278385	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs278386	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs278389	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2922213	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4273318	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4857107	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs5013928	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6440189	0.90[AFR][1000 genomes]
rs6440232	1.00[AMR][1000 genomes]
rs6795351	0.84[AFR][1000 genomes]
rs7373983	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7626395	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7630797	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs828604	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs828606	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs828607	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs828619	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs828620	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs828622	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs828623	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs828624	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs866873	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs965757	1.00[AMR][1000 genomes]
rs974981	1.00[AMR][1000 genomes]
rs996199	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591065	chr3:98204198-98766326	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1007140	chr3:98421229-99202458	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription 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	17 gene(s)	inside rSNPs	diseases
3	nsv536663	chr3:98421229-99202458	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv877214	chr3:98445324-98738006	Enhancers Genic enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv1009032	chr3:98514221-98607721	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	esv3323873	chr3:98581162-98585460	ZNF genes & repeats Weak transcription Strong transcription Genic enhancers	n/a	n/a	inside rSNPs	diseases
7	esv3440308	chr3:98582662-98587060	Weak transcription ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98536200-98594200	Weak transcription	HepG2	liver
2	chr3:98537000-98592800	Weak transcription	K562	blood
3	chr3:98553000-98590600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr3:98567600-98601000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr3:98575200-98590200	Weak transcription	HSMMtube	muscle
6	chr3:98575400-98583800	Weak transcription	HSMM	muscle
7	chr3:98575400-98603800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr3:98575800-98593200	Weak transcription	HUVEC	blood vessel
9	chr3:98575800-98603200	Weak transcription	Colon Smooth Muscle	Colon
10	chr3:98575800-98603800	Weak transcription	Stomach Smooth Muscle	stomach
11	chr3:98576000-98589800	Weak transcription	HMEC	breast
12	chr3:98576000-98590400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:98576000-98598600	Weak transcription	Fetal Kidney	kidney
14	chr3:98577200-98598800	Weak transcription	Left Ventricle	heart
15	chr3:98578000-98587400	Weak transcription	NHEK	skin
16	chr3:98578000-98588800	Weak transcription	NHLF	lung
17	chr3:98578000-98590400	Weak transcription	Adipose Nuclei	Adipose
18	chr3:98578000-98601000	Weak transcription	Lung	lung
19	chr3:98578200-98586400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr3:98578200-98590400	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr3:98578400-98586200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr3:98578800-98584000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr3:98578800-98589200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr3:98579200-98584000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr3:98581800-98584000	Weak transcription	NHDF-Ad	bronchial
26	chr3:98582800-98584400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr3:98583000-98584400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr3:98583000-98584400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr3:98583000-98584600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:98583200-98584400	Strong transcription	Muscle Satellite Cultured Cells	--
31	chr3:98583400-98611400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
32	chr3:98583600-98583800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr3:98583600-98584200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr3:98583600-98584400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr3:98583600-98584400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr3:98583600-98584400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr3:98583600-98584400	ZNF genes & repeats	Dnd41	blood
38	chr3:98583600-98584400	Strong transcription	Osteobl	bone
39	chr3:98583600-98584600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr3:98583600-98584600	ZNF genes & repeats	A549	lung
41	chr3:98583600-98584600	Strong transcription	NH-A	brain
42	chr3:98583600-98584800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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