Variant report

Variant	rs183225
Chromosome Location	chr6:27760266-27760267
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:28)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:28 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:27170058..27171703-chr6:27759137..27761536,2	K562	blood:
2	chr6:27719316..27720224-chr6:27760005..27760520,2	K562	blood:
3	chr6:27739695..27740963-chr6:27759065..27761089,16	K562	blood:
4	chr6:27753086..27755536-chr6:27756533..27760305,3	MCF-7	breast:
5	chr6:27739903..27740843-chr6:27759520..27760687,12	MCF-7	breast:
6	chr6:27753667..27756583-chr6:27759368..27762944,3	MCF-7	breast:
7	chr6:27657772..27659329-chr6:27759649..27761328,2	K562	blood:
8	chr6:27485668..27488646-chr6:27758590..27761132,3	K562	blood:
9	chr6:27154579..27158488-chr6:27757538..27761648,4	MCF-7	breast:
10	chr6:27114006..27117036-chr6:27757765..27761399,4	MCF-7	breast:
11	chr6:27744761..27747867-chr6:27758538..27761675,3	MCF-7	breast:
12	chr6:27585590..27586102-chr6:27759830..27760472,2	MCF-7	breast:
13	chr6:27144331..27145885-chr6:27758916..27760697,2	MCF-7	breast:
14	chr6:27156279..27157260-chr6:27759304..27760417,5	K562	blood:
15	chr6:27154554..27158026-chr6:27757603..27761465,4	K562	blood:
16	chr6:27218912..27219556-chr6:27759579..27760443,2	K562	blood:
17	chr6:27721516..27722337-chr6:27759817..27760598,2	K562	blood:
18	chr6:27486617..27489499-chr6:27758856..27760750,2	K562	blood:
19	chr6:27740030..27740808-chr6:27759602..27760720,5	MCF-7	breast:
20	chr6:27100058..27102201-chr6:27759619..27761680,3	K562	blood:
21	chr6:27145619..27146177-chr6:27759593..27760501,2	MCF-7	breast:
22	chr6:27516838..27518363-chr6:27758772..27760622,2	K562	blood:
23	chr6:27759954..27762609-chr6:27862725..27865000,3	MCF-7	breast:
24	chr6:27124582..27127541-chr6:27758021..27760797,2	K562	blood:
25	chr6:27199807..27202562-chr6:27760063..27762279,2	MCF-7	breast:
26	chr6:27112343..27120362-chr6:27757252..27765476,17	K562	blood:
27	chr6:27111619..27120059-chr6:27760198..27767915,14	K562	blood:
28	chr6:27129337..27130597-chr6:27759299..27760721,7	K562	blood:

No data

Variant related genes	Relation type
ENSG00000124635	Chromatin interaction
ENSG00000196787	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000265565	Chromatin interaction
ENSG00000112812	Chromatin interaction
ENSG00000197903	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs1015075	0.85[JPT][hapmap]
rs12174918	0.91[ASN][1000 genomes]
rs175597	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs200466	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs200469	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs200471	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs200473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs200478	0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs200479	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs200481	0.89[ASN][1000 genomes]
rs200482	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs200483	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs200484	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs200485	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs200488	0.85[ASN][1000 genomes]
rs200489	0.85[ASN][1000 genomes]
rs200490	1.00[JPT][hapmap]
rs200497	0.83[ASN][1000 genomes]
rs200498	0.81[ASN][1000 genomes]
rs200501	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs200948	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs200949	1.00[JPT][hapmap]
rs200950	0.81[ASN][1000 genomes]
rs200952	0.81[ASN][1000 genomes]
rs200953	1.00[JPT][hapmap]
rs200954	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs200965	1.00[JPT][hapmap]
rs200968	1.00[JPT][hapmap]
rs200973	1.00[JPT][hapmap]
rs200974	1.00[JPT][hapmap]
rs200975	1.00[JPT][hapmap]
rs200977	1.00[JPT][hapmap]
rs200981	1.00[JPT][hapmap]
rs200983	0.85[ASN][1000 genomes]
rs200989	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs200990	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs200992	0.83[ASN][1000 genomes]
rs200995	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs200996	0.85[ASN][1000 genomes]
rs201002	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2277104	0.83[ASN][1000 genomes]
rs2394001	0.91[ASN][1000 genomes]
rs2747054	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs34295134	0.85[ASN][1000 genomes]
rs36108923	0.85[ASN][1000 genomes]
rs370155	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs390764	0.87[ASN][1000 genomes]
rs401754	0.87[ASN][1000 genomes]
rs401763	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4713122	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4713124	0.91[ASN][1000 genomes]
rs480699	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs56870390	0.85[ASN][1000 genomes]
rs59015666	0.91[ASN][1000 genomes]
rs666846	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs904142	0.85[JPT][hapmap]
rs9348779	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9357052	1.00[JPT][hapmap]
rs9368531	0.87[ASN][1000 genomes]
rs9368534	0.83[ASN][1000 genomes]
rs9368535	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9368536	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9368537	0.85[JPT][hapmap]
rs9380018	0.89[ASN][1000 genomes]
rs9380026	1.00[JPT][hapmap]
rs9380028	0.85[JPT][hapmap]
rs9380030	0.85[JPT][hapmap]
rs9393858	0.87[ASN][1000 genomes]
rs9468227	0.85[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022797	chr6:27396961-27864277	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	390 gene(s)	inside rSNPs	diseases
2	nsv830618	chr6:27593274-27789605	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	143 gene(s)	inside rSNPs	diseases
3	nsv432858	chr6:27719375-28011652	Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	387 gene(s)	inside rSNPs	diseases
4	nsv1017440	chr6:27734824-27864277	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	370 gene(s)	inside rSNPs	diseases
5	nsv1022173	chr6:27734824-27959408	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
6	nsv1017057	chr6:27745777-27789683	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	125 gene(s)	inside rSNPs	diseases
7	nsv883512	chr6:27748631-27969004	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27759000-27760400	Active TSS	Breast Myoepithelial Primary Cells	Breast
2	chr6:27759000-27760400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:27759000-27760400	Active TSS	Brain Angular Gyrus	brain
4	chr6:27759000-27760400	Active TSS	Brain Cingulate Gyrus	brain
5	chr6:27759000-27760400	Active TSS	HMEC	breast
6	chr6:27759000-27760400	Active TSS	NH-A	brain
7	chr6:27759000-27760600	Active TSS	Ovary	ovary
8	chr6:27759000-27760600	Active TSS	Right Atrium	heart
9	chr6:27759000-27760600	Active TSS	Stomach Mucosa	stomach
10	chr6:27759000-27760800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:27759000-27760800	Active TSS	NHLF	lung
12	chr6:27759000-27761000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr6:27759000-27761000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr6:27759000-27761000	Active TSS	iPS-20b Cell Line	embryonic stem cell
15	chr6:27759000-27761000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
16	chr6:27759000-27761000	Active TSS	Fetal Kidney	kidney
17	chr6:27759000-27761000	Active TSS	NHDF-Ad	bronchial
18	chr6:27759000-27761200	Active TSS	H1 Cell Line	embryonic stem cell
19	chr6:27759000-27761200	Active TSS	H9 Cell Line	embryonic stem cell
20	chr6:27759000-27761200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr6:27759000-27761200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:27759000-27761200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr6:27759000-27761200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr6:27759000-27761200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr6:27759000-27761400	Active TSS	HUES6 Cell Line	embryonic stem cell
26	chr6:27759000-27761400	Active TSS	HUES64 Cell Line	embryonic stem cell
27	chr6:27759000-27761600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:27759200-27760400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:27759200-27760400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:27759200-27760400	Active TSS	Aorta	Aorta
31	chr6:27759200-27760400	Active TSS	Fetal Adrenal Gland	Adrenal Gland
32	chr6:27759200-27760400	Active TSS	Fetal Stomach	stomach
33	chr6:27759200-27760400	Active TSS	Left Ventricle	heart
34	chr6:27759200-27760400	Active TSS	NHEK	skin
35	chr6:27759200-27760400	Active TSS	Osteobl	bone
36	chr6:27759200-27760600	Active TSS	Fetal Brain Female	brain
37	chr6:27759200-27760600	Active TSS	Right Ventricle	heart
38	chr6:27759200-27760800	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr6:27759200-27760800	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:27759200-27760800	Active TSS	Muscle Satellite Cultured Cells	--
41	chr6:27759200-27760800	Flanking Active TSS	Liver	Liver
42	chr6:27759200-27760800	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
43	chr6:27759200-27760800	Active TSS	GM12878-XiMat	blood
44	chr6:27759200-27760800	Active TSS	HSMM	muscle
45	chr6:27759200-27760800	Active TSS	HSMMtube	muscle
46	chr6:27759200-27761000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr6:27759200-27761000	Active TSS	HUES48 Cell Line	embryonic stem cell
48	chr6:27759200-27761000	Active TSS	iPS-18 Cell Line	embryonic stem cell
49	chr6:27759200-27761000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
50	chr6:27759200-27761000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin

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