Variant report

Variant	rs6040205
Chromosome Location	chr20:10843399-10843400
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:10653303..10654885-chr20:10842335..10845031,2	MCF-7	breast:
2	chr20:10654989..10657731-chr20:10841500..10843671,2	MCF-7	breast:
3	chr20:10842484..10844630-chr20:10851140..10853749,2	MCF-7	breast:
4	chr20:10840297..10843529-chr20:10846665..10849897,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000270792	Chromatin interaction
ENSG00000101384	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs57856753	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6032972	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6032973	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6032981	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6032983	0.83[AMR][1000 genomes]
rs6040202	0.83[AMR][1000 genomes]
rs6040204	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6040210	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6040212	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6040230	0.83[AMR][1000 genomes]
rs73896405	1.00[AMR][1000 genomes]
rs73896414	0.83[AMR][1000 genomes]
rs73896415	0.83[AMR][1000 genomes]
rs73896416	0.83[AMR][1000 genomes]
rs73896417	0.83[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv912662	chr20:10823506-10864326	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	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	chr20:10830000-10845000	Weak transcription	Spleen	Spleen
2	chr20:10830200-10843600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr20:10830200-10843800	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr20:10835400-10843600	Weak transcription	Left Ventricle	heart
5	chr20:10835800-10843600	Weak transcription	Aorta	Aorta
6	chr20:10836000-10843800	Weak transcription	HMEC	breast
7	chr20:10838200-10844800	Weak transcription	Colonic Mucosa	Colon
8	chr20:10838400-10843600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr20:10838400-10843600	Weak transcription	Esophagus	oesophagus
10	chr20:10838400-10843600	Weak transcription	Pancreas	Pancrea
11	chr20:10838400-10843600	Weak transcription	Right Atrium	heart
12	chr20:10838400-10843800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr20:10838400-10843800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr20:10838400-10843800	Weak transcription	Adipose Nuclei	Adipose
15	chr20:10838400-10843800	Weak transcription	NHLF	lung
16	chr20:10838400-10845000	Weak transcription	Lung	lung
17	chr20:10838600-10843600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr20:10838600-10844000	Weak transcription	Fetal Muscle Leg	muscle
19	chr20:10838600-10844600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr20:10839400-10844800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr20:10841000-10843600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr20:10841000-10844600	Enhancers	Hela-S3	cervix
23	chr20:10841200-10844400	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr20:10841800-10843600	Weak transcription	Rectal Smooth Muscle	rectum
25	chr20:10842000-10844600	Enhancers	HUVEC	blood vessel
26	chr20:10842200-10844800	Enhancers	Stomach Mucosa	stomach
27	chr20:10842400-10844600	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr20:10842600-10843600	Weak transcription	Colon Smooth Muscle	Colon
29	chr20:10842600-10843800	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr20:10842600-10844600	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr20:10842800-10843600	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr20:10842800-10843800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr20:10842800-10843800	Weak transcription	Osteobl	bone
34	chr20:10842800-10844000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr20:10842800-10844400	Weak transcription	Primary neutrophils fromperipheralblood	blood
36	chr20:10842800-10844800	Weak transcription	Fetal Intestine Small	intestine
37	chr20:10842800-10844800	Weak transcription	HepG2	liver
38	chr20:10843000-10843400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr20:10843000-10843400	Weak transcription	Duodenum Mucosa	Duodenum
40	chr20:10843000-10843400	Weak transcription	Fetal Stomach	stomach
41	chr20:10843000-10843400	Weak transcription	NH-A	brain
42	chr20:10843200-10843600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr20:10843200-10843600	Weak transcription	NHEK	skin
44	chr20:10843200-10844400	Enhancers	A549	lung
45	chr20:10843200-10844600	Enhancers	Duodenum Smooth Muscle	Duodenum

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