Variant report

Variant	rs62255622
Chromosome Location	chr3:105626537-105626538
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:121483899..121485401-chr3:105625252..105628201,2	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs2455883	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2455885	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2455888	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2470704	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59825800	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255574	1.00[ASN][1000 genomes]
rs62255581	1.00[ASN][1000 genomes]
rs62255617	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255619	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255623	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62255624	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255625	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255626	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255627	1.00[ASN][1000 genomes]
rs62255628	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255629	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255630	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255632	1.00[ASN][1000 genomes]
rs62255634	1.00[ASN][1000 genomes]
rs62261490	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62261494	1.00[ASN][1000 genomes]
rs62261537	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1008564	chr3:105554580-105643435	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1008876	chr3:105554580-105645373	Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv877312	chr3:105560638-105916506	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105621600-105626800	Weak transcription	Small Intestine	intestine
2	chr3:105623000-105627200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:105623400-105627000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:105623400-105627000	Enhancers	Muscle Satellite Cultured Cells	--
5	chr3:105623400-105627000	Enhancers	Osteobl	bone
6	chr3:105623600-105626800	Enhancers	HSMM	muscle
7	chr3:105623600-105627000	Enhancers	HSMMtube	muscle
8	chr3:105623600-105627000	Enhancers	NHDF-Ad	bronchial
9	chr3:105623800-105627000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:105623800-105627000	Enhancers	Adipose Nuclei	Adipose
11	chr3:105624800-105627000	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr3:105625200-105626600	Enhancers	Pancreatic Islets	Pancreatic Islet
13	chr3:105625400-105626800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr3:105625400-105627600	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr3:105625600-105626600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr3:105625600-105626800	Enhancers	Primary neutrophils fromperipheralblood	blood
17	chr3:105625800-105626800	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr3:105625800-105627200	Enhancers	Primary T cells from cord blood	blood
19	chr3:105625800-105627400	Enhancers	Primary B cells from cord blood	blood
20	chr3:105626000-105626600	Active TSS	Aorta	Aorta
21	chr3:105626000-105626800	Enhancers	Primary T helper cells fromperipheralblood	blood
22	chr3:105626000-105627000	Enhancers	Fetal Lung	lung
23	chr3:105626200-105627000	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr3:105626200-105627400	Enhancers	NHLF	lung
25	chr3:105626200-105635200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr3:105626400-105626600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr3:105626400-105626800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
28	chr3:105626400-105626800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr3:105626400-105627000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr3:105626400-105627000	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr3:105626400-105627000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr3:105626400-105627000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr3:105626400-105627000	Enhancers	Colon Smooth Muscle	Colon
34	chr3:105626400-105627000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
35	chr3:105626400-105627600	Enhancers	GM12878-XiMat	blood

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