Variant report

Variant	rs12078571
Chromosome Location	chr1:98316398-98316399
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11165915	1.00[AMR][1000 genomes]
rs11165919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11165925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11165927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11165929	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11165931	1.00[AMR][1000 genomes]
rs11165932	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11165933	1.00[AMR][1000 genomes]
rs11165942	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12059648	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12065481	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12066038	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12067602	1.00[AMR][1000 genomes]
rs12071573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12071668	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12076723	1.00[AMR][1000 genomes]
rs12078010	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12080892	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12081421	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12087574	1.00[AMR][1000 genomes]
rs12087601	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12089025	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12089739	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12090727	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12091195	1.00[AMR][1000 genomes]
rs12092358	1.00[AMR][1000 genomes]
rs12093406	1.00[AMR][1000 genomes]
rs12093707	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12097552	1.00[AMR][1000 genomes]
rs28703292	1.00[AMR][1000 genomes]
rs74106027	1.00[AMR][1000 genomes]
rs74106028	1.00[AMR][1000 genomes]
rs74106030	1.00[AMR][1000 genomes]
rs74106031	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533039	chr1:97665736-98343102	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv530049	chr1:97883261-98384614	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1012958	chr1:98081528-98864746	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv871740	chr1:98165091-98322379	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv871472	chr1:98165091-98342417	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
6	nsv870596	chr1:98165091-98365310	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
7	nsv871625	chr1:98165091-98564736	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
8	nsv871050	chr1:98187755-98365310	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	esv1799805	chr1:98198206-98349028	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv871651	chr1:98200719-98365310	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv546869	chr1:98253405-98328093	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv546870	chr1:98253405-98336823	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv546871	chr1:98253405-98337283	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
14	nsv830725	chr1:98257894-98443497	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
15	nsv934244	chr1:98260729-98415915	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
16	nsv871376	chr1:98274132-98365310	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
17	nsv871077	chr1:98274132-98541677	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
18	nsv462572	chr1:98283854-98347775	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv546872	chr1:98283854-98347775	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
20	nsv546873	chr1:98283854-98348885	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
21	nsv871224	chr1:98290577-98365310	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
22	nsv870944	chr1:98299475-98365310	Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:98303200-98351000	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr1:98309400-98367200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr1:98311600-98320000	Weak transcription	Brain Cingulate Gyrus	brain
4	chr1:98311600-98320200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:98311600-98320400	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr1:98311600-98320600	Weak transcription	Right Ventricle	heart
7	chr1:98311600-98326600	Weak transcription	Gastric	stomach
8	chr1:98311600-98337800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr1:98311800-98320400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr1:98311800-98320400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr1:98311800-98320400	Weak transcription	Esophagus	oesophagus
12	chr1:98311800-98320400	Weak transcription	Left Ventricle	heart
13	chr1:98311800-98320400	Weak transcription	Lung	lung
14	chr1:98311800-98320400	Weak transcription	Pancreas	Pancrea
15	chr1:98311800-98320400	Weak transcription	Spleen	Spleen
16	chr1:98311800-98322000	Weak transcription	Aorta	Aorta
17	chr1:98311800-98322200	Weak transcription	Ovary	ovary
18	chr1:98311800-98322400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr1:98311800-98350400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr1:98312000-98320200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr1:98312000-98320200	Weak transcription	Thymus	Thymus
22	chr1:98312000-98322400	Weak transcription	Liver	Liver
23	chr1:98312000-98324000	Weak transcription	Duodenum Mucosa	Duodenum
24	chr1:98312000-98324200	Weak transcription	Fetal Thymus	thymus
25	chr1:98312200-98320200	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr1:98312200-98344400	Weak transcription	Fetal Intestine Small	intestine
27	chr1:98314000-98316400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr1:98314000-98316400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
29	chr1:98314000-98316600	Enhancers	Primary neutrophils fromperipheralblood	blood
30	chr1:98314000-98320400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr1:98314200-98317400	Enhancers	Hela-S3	cervix
32	chr1:98314600-98316400	Enhancers	Dnd41	blood
33	chr1:98314800-98316400	Enhancers	HSMM	muscle
34	chr1:98315000-98316400	Enhancers	NHDF-Ad	bronchial
35	chr1:98315000-98316400	Enhancers	Osteobl	bone
36	chr1:98315200-98316400	Enhancers	NH-A	brain
37	chr1:98315400-98316400	Enhancers	Primary hematopoietic stem cells	blood
38	chr1:98315400-98316400	Enhancers	Primary T killer memory cells from peripheral blood	blood
39	chr1:98315600-98316400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr1:98315600-98316400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr1:98315600-98317800	Enhancers	Primary monocytes fromperipheralblood	blood
42	chr1:98315600-98321400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr1:98315600-98337200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr1:98315800-98316400	Enhancers	A549	lung
45	chr1:98315800-98317000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr1:98315800-98317800	Enhancers	Primary hematopoietic stem cells short term culture	blood
47	chr1:98315800-98318000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr1:98315800-98318400	Weak transcription	Brain Hippocampus Middle	brain
49	chr1:98315800-98318600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr1:98315800-98320400	Weak transcription	Brain Substantia Nigra	brain

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