Variant report

Variant	rs4870117
Chromosome Location	chr6:150244956-150244957
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:149865589..149867401-chr6:150242514..150245357,2	MCF-7	breast:
2	chr6:150217021..150219534-chr6:150242538..150245487,2	MCF-7	breast:
3	chr6:150181490..150187274-chr6:150243970..150248410,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000268592	Chromatin interaction
ENSG00000131013	Chromatin interaction
ENSG00000120256	Chromatin interaction
ENSG00000164520	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10457852	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12204653	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12209310	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12210822	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12527391	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12528243	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1855572	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1999632	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1999633	0.81[AMR][1000 genomes]
rs2342766	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3798763	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3922946	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3922947	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4473864	0.83[ASN][1000 genomes]
rs4869755	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4869756	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4869767	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4869768	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4870078	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4870110	0.83[ASN][1000 genomes]
rs4870118	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs5024811	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57894361	0.83[AMR][1000 genomes]
rs6557165	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6912330	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6925151	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7452592	0.81[EUR][1000 genomes]
rs7764677	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs915140	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9322229	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9371228	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9383941	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9397070	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv886765	chr6:150198491-150288722	Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv1817805	chr6:150209592-150268708	Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150242800-150247800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr6:150243400-150245000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
3	chr6:150243400-150245000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:150243600-150245000	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:150243600-150245000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:150243600-150245000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:150243800-150245000	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:150243800-150245000	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
9	chr6:150243800-150245000	Flanking Bivalent TSS/Enh	Primary T helper naive cells fromperipheralblood	blood
10	chr6:150243800-150245000	Flanking Bivalent TSS/Enh	Primary T helper cells PMA-I stimulated	--
11	chr6:150243800-150245000	Flanking Bivalent TSS/Enh	Primary T helper 17 cells PMA-I stimulated	--
12	chr6:150243800-150245000	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
13	chr6:150243800-150245000	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
14	chr6:150243800-150245000	Flanking Bivalent TSS/Enh	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr6:150243800-150245000	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
16	chr6:150243800-150245000	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
17	chr6:150243800-150245000	Active TSS	Right Atrium	heart
18	chr6:150244000-150245000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
19	chr6:150244000-150246200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr6:150244200-150245000	Bivalent/Poised TSS	Primary T killer memory cells from peripheral blood	blood
21	chr6:150244200-150245000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:150244200-150245000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:150244200-150245000	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr6:150244200-150245000	Active TSS	Brain Cingulate Gyrus	brain
25	chr6:150244200-150246800	Enhancers	Spleen	Spleen
26	chr6:150244400-150245000	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:150244400-150245000	Flanking Bivalent TSS/Enh	Brain Anterior Caudate	brain
28	chr6:150244600-150245000	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
29	chr6:150244600-150245000	Bivalent/Poised TSS	Colonic Mucosa	Colon
30	chr6:150244600-150245000	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
31	chr6:150244600-150245000	Flanking Active TSS	Stomach Smooth Muscle	stomach
32	chr6:150244600-150245200	Bivalent Enhancer	Primary hematopoietic stem cells	blood
33	chr6:150244600-150245200	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr6:150244600-150245200	Bivalent Enhancer	Fetal Thymus	thymus
35	chr6:150244800-150245000	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:150244800-150245000	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr6:150244800-150245000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:150244800-150245000	Bivalent Enhancer	Primary B cells from peripheral blood	blood
39	chr6:150244800-150245000	Bivalent/Poised TSS	Primary hematopoietic stem cells short term culture	blood
40	chr6:150244800-150245000	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
41	chr6:150244800-150245000	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
42	chr6:150244800-150245000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:150244800-150245000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr6:150244800-150245000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr6:150244800-150245000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:150244800-150245000	Bivalent Enhancer	Primary mononuclear cells fromperipheralblood	Blood
47	chr6:150244800-150245000	Enhancers	Adipose Nuclei	Adipose
48	chr6:150244800-150245000	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
49	chr6:150244800-150245000	Active TSS	Duodenum Mucosa	Duodenum
50	chr6:150244800-150245000	Bivalent Enhancer	Fetal Muscle Leg	muscle

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