Variant report

Variant	rs56968543
Chromosome Location	chr6:64063168-64063169
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:64062639..64063365-chr6:64283555..64284772,4	MCF-7	breast:
2	chr6:64062812..64063338-chr6:64512230..64512915,2	MCF-7	breast:
3	chr6:64062640..64063526-chr6:64474143..64474904,3	MCF-7	breast:
4	chr6:64062641..64063566-chr6:64308201..64309203,4	MCF-7	breast:
5	chr6:64061851..64067000-chr6:64282014..64286349,7	MCF-7	breast:
6	chr6:64059286..64067591-chr6:64279675..64285580,14	MCF-7	breast:
7	chr6:64062103..64065068-chr6:64510364..64512443,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112245	Chromatin interaction
ENSG00000266680	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs57150842	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57634850	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57660366	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58220012	1.00[AMR][1000 genomes]
rs58361688	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59386094	1.00[AMR][1000 genomes]
rs60235537	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61211774	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61462691	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61687215	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6904155	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6904180	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6904553	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6907200	1.00[AMR][1000 genomes]
rs6907351	1.00[AMR][1000 genomes]
rs6909675	1.00[AMR][1000 genomes]
rs6910802	1.00[AMR][1000 genomes]
rs6913699	1.00[AMR][1000 genomes]
rs6914443	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6914661	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6925453	1.00[AMR][1000 genomes]
rs6933071	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6936106	1.00[AMR][1000 genomes]
rs6939127	1.00[AMR][1000 genomes]
rs73432835	1.00[AMR][1000 genomes]
rs73432842	1.00[AMR][1000 genomes]
rs7745612	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7746066	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7746241	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7749720	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7749748	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7750053	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7750464	1.00[AMR][1000 genomes]
rs7750495	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7750847	1.00[AMR][1000 genomes]
rs7751985	1.00[AMR][1000 genomes]
rs7752633	1.00[AMR][1000 genomes]
rs7764305	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7765130	1.00[AMR][1000 genomes]
rs7772030	1.00[AMR][1000 genomes]
rs7772187	1.00[AMR][1000 genomes]
rs7773899	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7775614	1.00[AMR][1000 genomes]
rs9361589	0.81[AFR][1000 genomes];1.00[AMR][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	nsv1019831	chr6:63279677-64230736	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv538270	chr6:63682752-64147241	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1031548	chr6:64026862-64102045	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv1030651	chr6:64028392-64102045	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64040400-64071200	Weak transcription	Placenta	Placenta
2	chr6:64060800-64064400	Enhancers	A549	lung
3	chr6:64062000-64063400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr6:64062000-64063400	Enhancers	HUVEC	blood vessel
5	chr6:64062000-64063400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
6	chr6:64062000-64064200	Enhancers	HepG2	liver
7	chr6:64062200-64063200	Flanking Active TSS	Primary hematopoietic stem cells	blood
8	chr6:64062200-64063200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr6:64062200-64063200	Enhancers	Spleen	Spleen
10	chr6:64062200-64063400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
11	chr6:64062200-64063400	Flanking Active TSS	Primary B cells from cord blood	blood
12	chr6:64062200-64063400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr6:64062200-64063400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr6:64062200-64063400	Enhancers	Fetal Intestine Small	intestine
15	chr6:64062200-64063400	Enhancers	Rectal Mucosa Donor 29	rectum
16	chr6:64062200-64063400	Enhancers	Rectal Smooth Muscle	rectum
17	chr6:64062200-64063400	Enhancers	Sigmoid Colon	Sigmoid Colon
18	chr6:64062200-64063400	Flanking Active TSS	Hela-S3	cervix
19	chr6:64062200-64063400	Enhancers	NHDF-Ad	bronchial
20	chr6:64062400-64063200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
21	chr6:64062400-64063400	Enhancers	Colonic Mucosa	Colon
22	chr6:64062400-64063400	Enhancers	Fetal Intestine Large	intestine
23	chr6:64062400-64063400	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr6:64062400-64063400	Enhancers	Stomach Mucosa	stomach
25	chr6:64062600-64063200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
26	chr6:64062600-64063200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:64062600-64063200	Active TSS	Duodenum Mucosa	Duodenum
28	chr6:64062600-64063200	Active TSS	GM12878-XiMat	blood
29	chr6:64062600-64063400	Enhancers	Pancreatic Islets	Pancreatic Islet
30	chr6:64062600-64071200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr6:64062800-64063200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
32	chr6:64062800-64063200	Flanking Active TSS	Primary B cells from peripheral blood	blood
33	chr6:64062800-64063200	Enhancers	Primary T cells from cord blood	blood
34	chr6:64062800-64063200	Active TSS	Ovary	ovary
35	chr6:64062800-64063200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
36	chr6:64062800-64063200	Active TSS	Skeletal Muscle Male	skeletal muscle
37	chr6:64062800-64063200	Enhancers	Dnd41	blood
38	chr6:64062800-64063400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr6:64062800-64063400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr6:64062800-64063400	Enhancers	Adipose Nuclei	Adipose
41	chr6:64063000-64063200	Flanking Active TSS	Liver	Liver
42	chr6:64063000-64063400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
43	chr6:64063000-64063400	Enhancers	Brain Anterior Caudate	brain
44	chr6:64063000-64063400	Enhancers	Stomach Smooth Muscle	stomach
45	chr6:64063000-64064400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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