Variant report

Variant	rs6445767
Chromosome Location	chr3:56162786-56162787
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:56161963..56164005-chr3:56164060..56166779,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11715314	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12493980	0.96[EUR][1000 genomes]
rs13091032	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1349616	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs1352011	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1452205	0.96[EUR][1000 genomes]
rs1452211	0.96[EUR][1000 genomes]
rs1452219	0.96[EUR][1000 genomes]
rs1466177	0.96[EUR][1000 genomes]
rs1519032	1.00[CEU][hapmap]
rs1519033	0.82[EUR][1000 genomes]
rs1519034	0.82[EUR][1000 genomes]
rs1519035	0.82[EUR][1000 genomes]
rs1564906	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1564908	0.96[EUR][1000 genomes]
rs2046450	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2046452	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2053956	0.96[EUR][1000 genomes]
rs2101321	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2167620	0.96[EUR][1000 genomes]
rs2316479	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2316483	0.96[EUR][1000 genomes]
rs2873169	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs4393875	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4585163	0.93[EUR][1000 genomes]
rs4974117	1.00[CEU][hapmap]
rs4974125	0.89[EUR][1000 genomes]
rs4974177	0.96[EUR][1000 genomes]
rs6766369	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6768695	0.82[EUR][1000 genomes]
rs6776414	0.96[EUR][1000 genomes]
rs6786348	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6800915	0.93[EUR][1000 genomes]
rs6801004	0.93[EUR][1000 genomes]
rs6802107	0.96[EUR][1000 genomes]
rs7634869	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9812767	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9823389	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9824530	0.93[EUR][1000 genomes]
rs9825660	0.82[EUR][1000 genomes]
rs982860	0.96[EUR][1000 genomes]
rs9839130	0.96[EUR][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	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56157400-56166200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:56157800-56175400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:56158800-56164600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:56159000-56166200	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr3:56159600-56164800	Weak transcription	Fetal Lung	lung
6	chr3:56159800-56162800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr3:56159800-56165400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:56159800-56165600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:56160000-56162800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr3:56160000-56163600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr3:56160000-56164800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:56160000-56164800	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:56160000-56165000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:56160000-56165000	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr3:56160000-56165400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr3:56160000-56165400	Weak transcription	HSMM	muscle
17	chr3:56160000-56165400	Weak transcription	NHDF-Ad	bronchial
18	chr3:56160000-56165600	Weak transcription	HSMMtube	muscle
19	chr3:56160000-56170600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr3:56160200-56164200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr3:56160200-56165000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr3:56160200-56165600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr3:56160200-56165600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:56161600-56163000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr3:56162200-56166600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:56162400-56166600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr3:56162400-56166800	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr3:56162600-56163000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr3:56162600-56164000	Enhancers	A549	lung
30	chr3:56162600-56166200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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