Variant report

Variant	rs28829296
Chromosome Location	chr6:146031807-146031808
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 123 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:122)

rs_ID	r²[population]
rs12111090	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs12111476	0.93[AFR][1000 genomes]
rs1591698	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs28479261	0.89[AFR][1000 genomes]
rs28587324	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs4896845	0.89[AFR][1000 genomes]
rs4896847	0.89[AFR][1000 genomes]
rs55658016	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs55746945	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs55813779	0.92[AFR][1000 genomes]
rs55814547	0.92[AFR][1000 genomes]
rs55820518	0.87[AFR][1000 genomes]
rs56116838	0.93[AFR][1000 genomes]
rs56198487	0.86[AFR][1000 genomes]
rs56241331	0.80[AFR][1000 genomes]
rs56282473	0.92[AFR][1000 genomes]
rs56864636	0.86[AFR][1000 genomes]
rs56950953	0.92[AFR][1000 genomes]
rs57105639	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs57646957	0.89[AFR][1000 genomes]
rs58588227	0.95[AFR][1000 genomes]
rs59135568	0.93[AFR][1000 genomes]
rs59557516	0.89[AFR][1000 genomes]
rs60162832	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs60609437	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs60875801	0.84[AFR][1000 genomes]
rs61014905	0.89[AFR][1000 genomes]
rs61041405	0.88[AFR][1000 genomes]
rs61121433	0.93[AFR][1000 genomes]
rs6570702	0.93[AFR][1000 genomes]
rs6570707	0.93[AFR][1000 genomes]
rs6570709	0.93[AFR][1000 genomes]
rs6570710	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6570714	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6570720	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6900158	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6901219	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6901587	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6902273	0.93[AFR][1000 genomes]
rs6902358	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6902952	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6908707	0.92[AFR][1000 genomes]
rs6913497	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6914491	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6918350	0.93[AFR][1000 genomes]
rs6918739	0.89[AFR][1000 genomes]
rs6919173	0.93[AFR][1000 genomes]
rs6920248	0.96[AFR][1000 genomes]
rs6921110	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6927960	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6928780	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6930335	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6931280	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6940415	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73564486	0.89[AFR][1000 genomes]
rs73566113	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73566115	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73566121	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73566126	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73566139	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73566140	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73566157	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73566168	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73566721	0.87[AFR][1000 genomes]
rs73566724	0.89[AFR][1000 genomes]
rs73566728	0.89[AFR][1000 genomes]
rs73566742	0.89[AFR][1000 genomes]
rs73566747	0.89[AFR][1000 genomes]
rs73566751	0.89[AFR][1000 genomes]
rs73566754	0.89[AFR][1000 genomes]
rs73566757	0.88[AFR][1000 genomes]
rs73568127	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73568130	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73568133	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73568134	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73568138	0.95[AFR][1000 genomes]
rs73568145	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73568148	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73568151	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73568185	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73568188	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73568362	0.92[AFR][1000 genomes]
rs73568366	0.92[AFR][1000 genomes]
rs73568375	0.92[AFR][1000 genomes]
rs73568389	0.85[AFR][1000 genomes]
rs73577358	0.93[AFR][1000 genomes]
rs73577363	0.93[AFR][1000 genomes]
rs73577384	0.93[AFR][1000 genomes]
rs73579478	0.92[AFR][1000 genomes]
rs73579483	0.94[AFR][1000 genomes]
rs73579498	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73782053	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73782068	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73784038	0.89[AFR][1000 genomes]
rs73784067	0.92[AFR][1000 genomes]
rs7738406	0.92[AFR][1000 genomes]
rs7738822	0.92[AFR][1000 genomes]
rs7738906	0.92[AFR][1000 genomes]
rs7741139	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7744082	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7745379	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7745722	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7749377	0.81[AFR][1000 genomes]
rs7750382	0.89[AFR][1000 genomes]
rs7753694	0.93[AFR][1000 genomes]
rs7753832	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7754367	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7757137	0.86[AFR][1000 genomes]
rs7758839	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7759254	0.88[AFR][1000 genomes]
rs7761251	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7761577	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7763273	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7768195	0.92[AFR][1000 genomes]
rs7771112	0.88[AFR][1000 genomes]
rs7771653	0.89[AFR][1000 genomes]
rs7772012	0.93[AFR][1000 genomes]
rs7772550	0.92[AFR][1000 genomes]
rs7773780	0.90[AFR][1000 genomes]
rs9718033	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs9766595	0.90[AFR][1000 genomes]
rs9766596	0.92[AFR][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	nsv934064	chr6:146007547-146044233	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146003400-146033600	Weak transcription	Brain Hippocampus Middle	brain
2	chr6:146006800-146050000	Weak transcription	Brain Cingulate Gyrus	brain
3	chr6:146007400-146043800	Weak transcription	Liver	Liver
4	chr6:146020200-146035000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:146026800-146055800	Weak transcription	Left Ventricle	heart
6	chr6:146027000-146035800	Weak transcription	Thymus	Thymus
7	chr6:146027200-146034400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:146027600-146043400	Weak transcription	Psoas Muscle	Psoas
9	chr6:146027800-146035000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr6:146028600-146049200	Weak transcription	Stomach Smooth Muscle	stomach
11	chr6:146028800-146035000	Weak transcription	Primary T cells from cord blood	blood
12	chr6:146029800-146033600	Weak transcription	Primary B cells from cord blood	blood
13	chr6:146029800-146034800	Weak transcription	Primary hematopoietic stem cells	blood
14	chr6:146029800-146037800	Weak transcription	Right Ventricle	heart
15	chr6:146030000-146032400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:146030000-146034200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:146030000-146035000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:146030000-146036000	Weak transcription	Ovary	ovary
19	chr6:146030000-146043000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr6:146030200-146035600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr6:146030200-146036400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr6:146030200-146037800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:146030200-146054000	Weak transcription	Skeletal Muscle Male	skeletal muscle

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