Variant report

Variant	rs17056066
Chromosome Location	chr6:128921037-128921038
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:128840068..128843152-chr6:128919180..128921740,3	MCF-7	breast:
2	chr6:128839123..128844576-chr6:128915695..128924187,20	MCF-7	breast:
3	chr6:128889715..128894242-chr6:128918492..128921414,6	MCF-7	breast:
4	chr6:128848533..128850915-chr6:128919226..128921374,2	MCF-7	breast:
5	chr6:128899252..128902077-chr6:128918932..128921970,3	MCF-7	breast:
6	chr6:128918449..128923023-chr6:128923258..128928829,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152894	Chromatin interaction
ENSG00000213130	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12055809	0.81[ASW][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.98[ASN][1000 genomes]
rs1578518	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs17056073	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17056077	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2092826	0.95[ASN][1000 genomes]
rs2326703	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4141680	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59322395	0.82[ASN][1000 genomes]
rs6928257	0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6932252	0.94[ASN][1000 genomes]
rs7451451	0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap]
rs7765578	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9385467	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9388656	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9402058	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9482905	0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9492025	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv830801	chr6:128878436-129064667	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128916000-128923400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:128916400-128922800	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr6:128916600-128923200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:128916600-128923400	Enhancers	HMEC	breast
5	chr6:128917400-128921600	Weak transcription	Left Ventricle	heart
6	chr6:128917600-128921400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:128918200-128922400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:128918200-128922600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:128918400-128921200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:128918800-128921400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr6:128918800-128921400	Enhancers	NH-A	brain
12	chr6:128918800-128922600	Enhancers	NHDF-Ad	bronchial
13	chr6:128919000-128922800	Enhancers	Fetal Heart	heart
14	chr6:128919400-128921200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr6:128919600-128923200	Enhancers	HSMM	muscle
16	chr6:128919800-128921200	Enhancers	Stomach Mucosa	stomach
17	chr6:128920000-128922400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr6:128920000-128923000	Enhancers	NHLF	lung
19	chr6:128920000-128928800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr6:128920200-128921400	Enhancers	Pancreatic Islets	Pancreatic Islet
21	chr6:128920400-128921200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:128920400-128921800	Enhancers	NHEK	skin
23	chr6:128920400-128923400	Enhancers	Dnd41	blood
24	chr6:128920600-128921400	Enhancers	HUVEC	blood vessel
25	chr6:128920600-128922200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr6:128920600-128922600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:128920600-128922800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:128920800-128922600	Enhancers	HSMMtube	muscle
29	chr6:128921000-128921800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:128921000-128922000	Enhancers	HUES48 Cell Line	embryonic stem cell
31	chr6:128921000-128922400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
32	chr6:128921000-128922400	Enhancers	Cortex derived primary cultured neurospheres	brain
33	chr6:128921000-128922400	Flanking Active TSS	Osteobl	bone
34	chr6:128921000-128922600	Enhancers	Primary hematopoietic stem cells short term culture	blood
35	chr6:128921000-128922600	Enhancers	Fetal Lung	lung
36	chr6:128921000-128923400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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