Variant report

Variant	rs17012861
Chromosome Location	chr3:23275053-23275054
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10510537	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13077333	0.95[ASN][1000 genomes]
rs13083654	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13087234	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs13089963	0.89[ASN][1000 genomes]
rs13090303	0.90[JPT][hapmap]
rs13095736	0.90[JPT][hapmap]
rs13095887	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13095960	0.86[ASN][1000 genomes]
rs13098494	0.85[JPT][hapmap]
rs1495132	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17012823	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17012834	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17012844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17012852	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17012897	0.97[ASN][1000 genomes]
rs17012927	1.00[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17012943	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17012959	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17012969	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17012988	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17012998	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17013003	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs17013023	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17013026	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17013029	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17013035	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17013049	0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17013104	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013116	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013125	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013128	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013152	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17345745	0.88[JPT][hapmap]
rs2014132	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2291720	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs34239585	1.00[ASN][1000 genomes]
rs34259979	1.00[ASN][1000 genomes]
rs34646795	0.89[ASN][1000 genomes]
rs35743404	1.00[ASN][1000 genomes]
rs36004369	0.95[ASN][1000 genomes]
rs58844120	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59365170	0.96[AMR][1000 genomes]
rs60709653	0.96[AMR][1000 genomes]
rs73044305	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs73044309	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs73044318	0.96[AMR][1000 genomes]
rs73044329	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73044337	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73044339	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73050236	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73050238	0.96[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73050257	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73050270	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73050276	1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9873329	0.88[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834636	chr3:23138653-23301443	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23261400-23278200	Weak transcription	Brain Angular Gyrus	brain
2	chr3:23265400-23282000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:23266200-23277800	Weak transcription	Fetal Thymus	thymus
4	chr3:23270600-23278200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:23270600-23278400	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr3:23271200-23276800	Weak transcription	Psoas Muscle	Psoas
7	chr3:23271200-23278200	Weak transcription	Right Ventricle	heart
8	chr3:23272600-23283000	Weak transcription	HMEC	breast
9	chr3:23273600-23277800	Weak transcription	Primary hematopoietic stem cells	blood
10	chr3:23274400-23275200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr3:23274400-23280800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:23274600-23277000	Weak transcription	Ovary	ovary
13	chr3:23274600-23278200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr3:23274600-23278200	Weak transcription	Left Ventricle	heart
15	chr3:23274600-23279800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr3:23274600-23281400	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr3:23274600-23283000	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr3:23274800-23275800	Weak transcription	Fetal Heart	heart
19	chr3:23274800-23276000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr3:23274800-23276200	Weak transcription	Brain Hippocampus Middle	brain
21	chr3:23274800-23277800	Weak transcription	Brain Substantia Nigra	brain
22	chr3:23274800-23278000	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr3:23274800-23278000	Weak transcription	Primary B cells from peripheral blood	blood
24	chr3:23274800-23278200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr3:23274800-23280200	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr3:23274800-23298200	Weak transcription	Aorta	Aorta
27	chr3:23275000-23277800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr3:23275000-23278000	Weak transcription	Brain Cingulate Gyrus	brain
29	chr3:23275000-23280800	Weak transcription	Brain Anterior Caudate	brain

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