Variant report

Variant	rs28529735
Chromosome Location	chr3:69220684-69220685
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69212011..69214078-chr3:69219051..69220759,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11128118	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11712024	0.97[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12172924	0.84[ASN][1000 genomes]
rs12637416	0.89[ASN][1000 genomes]
rs13059488	0.84[ASN][1000 genomes]
rs13059687	0.84[ASN][1000 genomes]
rs13082480	0.95[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4358306	0.81[ASN][1000 genomes]
rs4450819	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4493438	1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4508786	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4508787	1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4541413	0.95[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4624565	0.84[ASN][1000 genomes]
rs4855361	0.84[AMR][1000 genomes]
rs6763046	0.81[ASN][1000 genomes]
rs6765197	0.81[ASN][1000 genomes]
rs6765309	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6800198	0.89[EUR][1000 genomes]
rs6804718	0.95[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs72930219	0.81[AMR][1000 genomes]
rs9310138	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9831516	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9833167	0.84[ASN][1000 genomes]
rs9836305	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9838728	0.83[ASN][1000 genomes]
rs9847983	0.84[ASN][1000 genomes]
rs9853587	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9853744	0.88[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9860235	0.84[ASN][1000 genomes]
rs9872199	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9875511	0.83[ASN][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	nsv876933	chr3:69059023-69227379	Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69209600-69228000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr3:69211200-69226600	Weak transcription	Fetal Kidney	kidney
3	chr3:69211200-69229400	Weak transcription	Fetal Brain Male	brain
4	chr3:69211600-69223400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:69211600-69230200	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr3:69211600-69231000	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr3:69213400-69225400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr3:69214200-69226600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:69214800-69230400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr3:69215200-69225400	Weak transcription	Fetal Muscle Leg	muscle
11	chr3:69215600-69225200	Weak transcription	Fetal Intestine Small	intestine
12	chr3:69216000-69225400	Weak transcription	Fetal Muscle Trunk	muscle
13	chr3:69216000-69227200	Weak transcription	Pancreas	Pancrea
14	chr3:69216200-69221000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:69216200-69229800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr3:69217200-69225400	Weak transcription	Esophagus	oesophagus
17	chr3:69217200-69225400	Weak transcription	Fetal Stomach	stomach
18	chr3:69217200-69230200	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr3:69217400-69229800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr3:69217600-69227400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr3:69217600-69230600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr3:69218200-69220800	Weak transcription	Fetal Heart	heart
23	chr3:69218200-69223000	Strong transcription	HUVEC	blood vessel
24	chr3:69218200-69223800	Strong transcription	Liver	Liver
25	chr3:69218400-69230000	Weak transcription	Hela-S3	cervix
26	chr3:69218400-69247400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:69218400-69247800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr3:69218600-69221200	Strong transcription	NHEK	skin
29	chr3:69218600-69222400	Strong transcription	Rectal Mucosa Donor 31	rectum
30	chr3:69218600-69224600	Weak transcription	HSMMtube	muscle
31	chr3:69218600-69228000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr3:69218600-69228200	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr3:69218600-69228400	Weak transcription	Adipose Nuclei	Adipose
34	chr3:69218800-69227600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr3:69218800-69228400	Weak transcription	Colonic Mucosa	Colon
36	chr3:69219000-69227200	Weak transcription	Small Intestine	intestine
37	chr3:69219200-69230000	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr3:69219400-69221400	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr3:69219400-69226000	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr3:69219400-69227000	Weak transcription	Rectal Smooth Muscle	rectum
41	chr3:69219600-69221400	Strong transcription	Fetal Lung	lung
42	chr3:69219600-69222600	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr3:69219600-69227000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr3:69219800-69221000	Enhancers	Cortex derived primary cultured neurospheres	brain
45	chr3:69219800-69221200	Strong transcription	Duodenum Mucosa	Duodenum
46	chr3:69219800-69221200	Strong transcription	Fetal Brain Female	brain
47	chr3:69219800-69221400	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr3:69219800-69221800	Enhancers	Brain Cingulate Gyrus	brain
49	chr3:69219800-69222000	Strong transcription	Dnd41	blood
50	chr3:69219800-69222000	Strong transcription	HSMM	muscle

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