Variant report

Variant	rs6779146
Chromosome Location	chr3:135907213-135907214
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:135907119..135909338-chr3:135913659..135917639,5	MCF-7	breast:
2	chr3:135905762..135909459-chr3:135968082..135970709,4	MCF-7	breast:
3	chr3:135902782..135906527-chr3:135906678..135909399,3	MCF-7	breast:
4	chr3:135897191..135900047-chr3:135906521..135908665,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174579	Chromatin interaction
ENSG00000114054	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1153871	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1154988	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1278719	0.81[EUR][1000 genomes]
rs34330586	0.83[EUR][1000 genomes]
rs34894639	0.81[EUR][1000 genomes]
rs4678322	0.83[EUR][1000 genomes]
rs4678361	0.87[EUR][1000 genomes]
rs523118	0.81[EUR][1000 genomes]
rs534944	0.83[EUR][1000 genomes]
rs61789561	0.81[EUR][1000 genomes]
rs61791721	0.85[EUR][1000 genomes]
rs61791757	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs645040	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs684773	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs687339	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9840812	0.88[EUR][1000 genomes]
rs9865841	0.87[EUR][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	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135889400-135910400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
2	chr3:135890400-135909600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
3	chr3:135893600-135910400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:135897400-135907600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr3:135897400-135909800	Enhancers	Primary T cells fromperipheralblood	blood
6	chr3:135897600-135909000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr3:135897600-135911000	Enhancers	Primary B cells from peripheral blood	blood
8	chr3:135898000-135910200	Weak transcription	HSMM	muscle
9	chr3:135898400-135909200	Weak transcription	Aorta	Aorta
10	chr3:135900800-135910400	Enhancers	Liver	Liver
11	chr3:135901000-135910400	Enhancers	HepG2	liver
12	chr3:135901600-135908600	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr3:135903400-135911200	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr3:135904200-135907800	Enhancers	Primary neutrophils fromperipheralblood	blood
15	chr3:135904400-135907800	Enhancers	Left Ventricle	heart
16	chr3:135904400-135909800	Enhancers	Monocytes-CD14+_RO01746	blood
17	chr3:135904400-135910400	Enhancers	Skeletal Muscle Male	skeletal muscle
18	chr3:135904600-135907800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:135904800-135907600	Enhancers	A549	lung
20	chr3:135904800-135907800	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr3:135904800-135907800	Enhancers	Colon Smooth Muscle	Colon
22	chr3:135904800-135907800	Enhancers	Fetal Heart	heart
23	chr3:135904800-135907800	Enhancers	Stomach Mucosa	stomach
24	chr3:135904800-135908200	Enhancers	Primary B cells from cord blood	blood
25	chr3:135904800-135908200	Enhancers	NHEK	skin
26	chr3:135905000-135907400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr3:135905000-135907600	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr3:135905000-135907800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr3:135905000-135907800	Enhancers	Brain Cingulate Gyrus	brain
30	chr3:135905000-135907800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
31	chr3:135905000-135907800	Enhancers	Brain Substantia Nigra	brain
32	chr3:135905000-135907800	Enhancers	Rectal Mucosa Donor 31	rectum
33	chr3:135905000-135908000	Enhancers	Brain Hippocampus Middle	brain
34	chr3:135905000-135908200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr3:135905000-135908400	Enhancers	Small Intestine	intestine
36	chr3:135905000-135909000	Enhancers	Brain Inferior Temporal Lobe	brain
37	chr3:135905000-135909600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr3:135905200-135907800	Enhancers	Primary hematopoietic stem cells short term culture	blood
39	chr3:135905200-135907800	Enhancers	Ovary	ovary
40	chr3:135905200-135907800	Enhancers	Pancreas	Pancrea
41	chr3:135905200-135907800	Enhancers	Right Atrium	heart
42	chr3:135905200-135908200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr3:135905200-135908800	Enhancers	Fetal Thymus	thymus
44	chr3:135905400-135907600	Enhancers	Primary hematopoietic stem cells	blood
45	chr3:135905400-135907600	Enhancers	Duodenum Smooth Muscle	Duodenum
46	chr3:135905400-135907800	Enhancers	Osteobl	bone
47	chr3:135905400-135908400	Enhancers	Brain Germinal Matrix	brain
48	chr3:135905400-135908600	Enhancers	Primary T cells from cord blood	blood
49	chr3:135905400-135908800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr3:135905400-135909200	Enhancers	Primary T killer memory cells from peripheral blood	blood

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