Variant report

Variant	rs6774210
Chromosome Location	chr3:119680742-119680743
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:119680003..119681956-chr3:119813092..119814970,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000082701	Chromatin interaction
ENSG00000242622	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12152218	1.00[JPT][hapmap]
rs2035671	1.00[JPT][hapmap]
rs2199503	1.00[ASW][hapmap];1.00[CEU][hapmap];0.83[LWK][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes]
rs334541	0.81[TSI][hapmap]
rs334543	0.81[TSI][hapmap]
rs4488869	1.00[JPT][hapmap]
rs6438559	1.00[JPT][hapmap]
rs6438564	1.00[JPT][hapmap]
rs6769988	1.00[JPT][hapmap]
rs6794478	1.00[JPT][hapmap]
rs7431209	1.00[ASW][hapmap];1.00[CEU][hapmap];0.83[LWK][hapmap];0.96[MKK][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes]
rs902795	1.00[JPT][hapmap]

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	nsv949589	chr3:119560606-120175917	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv829696	chr3:119567659-119711405	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1001476	chr3:119575386-120075417	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
4	nsv536704	chr3:119575386-120075417	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119611400-119682200	Weak transcription	HSMMtube	muscle
2	chr3:119630800-119697400	Weak transcription	Thymus	Thymus
3	chr3:119631000-119717000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:119641000-119681600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:119641000-119681600	Weak transcription	Fetal Intestine Small	intestine
6	chr3:119641000-119694400	Weak transcription	Fetal Lung	lung
7	chr3:119641200-119681200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr3:119656400-119681200	Weak transcription	Primary hematopoietic stem cells	blood
9	chr3:119656400-119700000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:119656600-119718400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr3:119658400-119688400	Weak transcription	NHEK	skin
12	chr3:119658400-119688600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:119662000-119684800	Weak transcription	Rectal Smooth Muscle	rectum
14	chr3:119662400-119700400	Weak transcription	Fetal Intestine Large	intestine
15	chr3:119663600-119681200	Weak transcription	Primary T cells from cord blood	blood
16	chr3:119664000-119695000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr3:119664600-119700200	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr3:119664600-119702400	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr3:119665800-119697400	Weak transcription	Primary B cells from peripheral blood	blood
20	chr3:119665800-119716800	Weak transcription	HSMM	muscle
21	chr3:119666000-119703000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr3:119666200-119687600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr3:119666200-119688200	Weak transcription	HMEC	breast
24	chr3:119666200-119700200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:119666200-119700400	Weak transcription	Fetal Thymus	thymus
26	chr3:119666400-119681200	Weak transcription	Dnd41	blood
27	chr3:119666400-119681200	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr3:119666400-119681600	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr3:119666400-119688400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:119667200-119688600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr3:119667800-119688000	Weak transcription	Pancreas	Pancrea
32	chr3:119670800-119687400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr3:119671200-119681600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr3:119674400-119688400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr3:119675200-119688400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr3:119675600-119697400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr3:119677800-119681600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr3:119678000-119697400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr3:119678200-119681600	Weak transcription	Primary B cells from cord blood	blood
40	chr3:119678600-119688600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr3:119679000-119681600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:119679200-119696600	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr3:119680200-119682800	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr3:119680200-119683000	Weak transcription	A549	lung
45	chr3:119680200-119688600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr3:119680400-119681600	Weak transcription	Left Ventricle	heart
47	chr3:119680600-119681000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr3:119680600-119681200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr3:119680600-119682000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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