Variant report

Variant	rs58059905
Chromosome Location	chr10:97409898-97409899
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97408175..97410101-chr10:97411776..97414695,3	MCF-7	breast:
2	chr10:97408476..97410603-chr10:97424480..97427139,2	K562	blood:
3	chr10:97408761..97411732-chr10:97414860..97417411,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000059573	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11188367	0.87[EUR][1000 genomes]
rs11188378	0.83[EUR][1000 genomes]
rs11188382	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11188383	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11188388	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11188391	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11188405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188410	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11188412	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188413	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188415	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188419	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188424	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11188431	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11188448	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11188450	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11188451	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11188461	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11188466	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11188467	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11188469	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11188475	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs11188479	0.84[AMR][1000 genomes]
rs11188481	0.84[AMR][1000 genomes]
rs11188491	0.84[AMR][1000 genomes]
rs11553577	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12354465	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12357211	0.87[EUR][1000 genomes]
rs12357513	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12358517	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3818833	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs41291576	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4420188	0.84[AMR][1000 genomes]
rs56747025	0.83[EUR][1000 genomes]
rs61587319	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61736814	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7070507	0.84[AMR][1000 genomes]
rs7090630	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73329287	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73331134	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]

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	nsv526180	chr10:97332195-97511037	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97364000-97411000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr10:97364800-97411000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:97376400-97411400	Weak transcription	Psoas Muscle	Psoas
4	chr10:97376400-97415200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr10:97376600-97415000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr10:97378600-97414200	Weak transcription	Fetal Heart	heart
7	chr10:97383000-97411200	Strong transcription	Placenta	Placenta
8	chr10:97383800-97410200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
9	chr10:97386600-97411000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr10:97388800-97411000	Weak transcription	Fetal Brain Male	brain
11	chr10:97389600-97413200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr10:97389800-97413200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr10:97390000-97411200	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr10:97394400-97411400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr10:97399800-97413600	Strong transcription	Dnd41	blood
16	chr10:97400000-97412600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr10:97400800-97411200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
18	chr10:97401000-97415200	Weak transcription	Colon Smooth Muscle	Colon
19	chr10:97401200-97411000	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr10:97402200-97415200	Weak transcription	Right Ventricle	heart
21	chr10:97402600-97410000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr10:97402600-97411000	Weak transcription	Thymus	Thymus
23	chr10:97402800-97410000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr10:97402800-97410800	Weak transcription	Brain Substantia Nigra	brain
25	chr10:97402800-97411000	Weak transcription	Brain Hippocampus Middle	brain
26	chr10:97402800-97411000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr10:97402800-97415200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr10:97403000-97410800	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr10:97403000-97410800	Weak transcription	Fetal Kidney	kidney
30	chr10:97403000-97411000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr10:97403000-97411000	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr10:97403000-97411200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr10:97403000-97411200	Weak transcription	Left Ventricle	heart
34	chr10:97403000-97414400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr10:97403000-97415400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr10:97404000-97410400	Genic enhancers	Fetal Intestine Small	intestine
37	chr10:97404000-97411200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr10:97404000-97413800	Strong transcription	Fetal Muscle Leg	muscle
39	chr10:97404200-97410000	Strong transcription	HUES64 Cell Line	embryonic stem cell
40	chr10:97404200-97410600	Genic enhancers	Fetal Intestine Large	intestine
41	chr10:97404200-97411400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr10:97404200-97412600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr10:97404200-97413000	Strong transcription	HSMM	muscle
44	chr10:97404200-97413200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr10:97404400-97411000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr10:97404400-97413000	Strong transcription	NH-A	brain
47	chr10:97404400-97413200	Strong transcription	Fetal Muscle Trunk	muscle
48	chr10:97404600-97412200	Strong transcription	Primary hematopoietic stem cells	blood
49	chr10:97404600-97413800	Strong transcription	Fetal Stomach	stomach
50	chr10:97404800-97411400	Strong transcription	Liver	Liver

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