Variant report

Variant	rs6425039
Chromosome Location	chr1:172688611-172688612
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:172398506..172399126-chr1:172688488..172689418,4	MCF-7	breast:
2	chr1:172398537..172399104-chr1:172688555..172689392,3	K562	blood:
3	chr1:172686833..172688972-chr1:172691671..172694173,3	K562	blood:
4	chr1:172418589..172419710-chr1:172688502..172689393,4	MCF-7	breast:
5	chr1:172578369..172579356-chr1:172688459..172689768,14	MCF-7	breast:
6	chr1:172687416..172689203-chr1:172691086..172692709,2	MCF-7	breast:
7	chr1:172575736..172579106-chr1:172685787..172690333,5	MCF-7	breast:
8	chr1:172688546..172689151-chr1:172696697..172697446,2	MCF-7	breast:
9	chr1:172552123..172552679-chr1:172688568..172689434,3	MCF-7	breast:
10	chr1:172578481..172579335-chr1:172688306..172688972,2	MCF-7	breast:
11	chr1:172502079..172503900-chr1:172686438..172689153,3	MCF-7	breast:
12	chr1:172579750..172580469-chr1:172688502..172689330,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000094975	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11803323	0.85[AMR][1000 genomes]
rs11803350	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1492902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1492903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16844922	0.85[AMR][1000 genomes]
rs16844927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16844937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16844939	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16844967	0.85[AMR][1000 genomes]
rs16844968	0.85[AMR][1000 genomes]
rs41421246	0.85[AMR][1000 genomes]
rs55913261	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56663247	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57707973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59977644	0.85[AMR][1000 genomes]
rs61223740	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61383871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425040	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425042	0.85[AMR][1000 genomes]
rs6664516	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6691607	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73038034	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73038039	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73038049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73038063	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73038078	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73038085	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73038088	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73038099	0.85[AMR][1000 genomes]
rs7519689	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7527983	1.00[AMR][1000 genomes]
rs7532033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7537304	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7542816	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7553473	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs987261	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs989340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172683400-172689200	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr1:172684000-172689000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr1:172684000-172692400	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr1:172685000-172690400	Enhancers	Placenta	Placenta
5	chr1:172685400-172689200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr1:172685800-172689000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr1:172685800-172689000	Weak transcription	Left Ventricle	heart
8	chr1:172686000-172693600	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr1:172686200-172693800	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr1:172686200-172693800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr1:172686200-172693800	Weak transcription	Fetal Thymus	thymus
12	chr1:172686800-172689200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr1:172686800-172689200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr1:172687000-172688800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr1:172687000-172689400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr1:172687000-172689600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr1:172687000-172689800	Enhancers	Placenta Amnion	Placenta Amnion
18	chr1:172687200-172689200	Enhancers	NHLF	lung
19	chr1:172687400-172689000	Weak transcription	A549	lung
20	chr1:172687600-172689200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr1:172687600-172689200	Flanking Active TSS	NHEK	skin
22	chr1:172687600-172689800	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr1:172687800-172689400	Enhancers	Primary T helper cells PMA-I stimulated	--
24	chr1:172687800-172692400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr1:172688000-172690000	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr1:172688200-172689200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr1:172688400-172688800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr1:172688400-172688800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr1:172688400-172688800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr1:172688400-172688800	Flanking Active TSS	HMEC	breast
31	chr1:172688400-172688800	Enhancers	NH-A	brain
32	chr1:172688400-172688800	Flanking Active TSS	Osteobl	bone
33	chr1:172688400-172689000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr1:172688400-172689200	Enhancers	Muscle Satellite Cultured Cells	--
35	chr1:172688400-172689200	Enhancers	Adipose Nuclei	Adipose
36	chr1:172688400-172689200	Enhancers	Dnd41	blood
37	chr1:172688600-172688800	Enhancers	Primary T cells from cord blood	blood
38	chr1:172688600-172688800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr1:172688600-172688800	Flanking Active TSS	NHDF-Ad	bronchial
40	chr1:172688600-172689000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr1:172688600-172689000	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr1:172688600-172689200	Enhancers	Primary T helper naive cells from peripheral blood	blood
43	chr1:172688600-172689200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
44	chr1:172688600-172689200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
45	chr1:172688600-172689200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
46	chr1:172688600-172689200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr1:172688600-172689200	Enhancers	Primary T killer memory cells from peripheral blood	blood
48	chr1:172688600-172689400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
49	chr1:172688600-172689400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr1:172688600-172689400	Enhancers	K562	blood

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