Variant report

Variant	rs579789
Chromosome Location	chr6:149679371-149679372
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149677655..149680872-chr6:149681238..149685381,4	K562	blood:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs2143076	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2262617	0.81[EUR][1000 genomes]
rs2341783	0.87[JPT][hapmap]
rs2341784	0.87[JPT][hapmap]
rs2744427	0.87[JPT][hapmap]
rs2744434	0.87[JPT][hapmap]
rs2789488	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2789490	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs2789492	0.85[ASN][1000 genomes]
rs2789500	0.87[JPT][hapmap]
rs3734296	0.87[JPT][hapmap]
rs472810	0.86[JPT][hapmap]
rs474369	0.87[JPT][hapmap]
rs478767	0.87[JPT][hapmap]
rs480526	0.87[JPT][hapmap]
rs489551	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4895788	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4897124	0.81[EUR][1000 genomes]
rs492956	0.86[JPT][hapmap]
rs494340	0.82[JPT][hapmap]
rs501926	0.87[JPT][hapmap]
rs504762	0.83[JPT][hapmap]
rs504985	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs506268	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs511100	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs511105	0.87[JPT][hapmap]
rs514839	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs515133	0.83[JPT][hapmap]
rs521845	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs532250	0.83[JPT][hapmap]
rs536203	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs537354	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs538386	0.87[JPT][hapmap]
rs540538	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs544947	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs556335	0.87[JPT][hapmap]
rs559052	0.86[JPT][hapmap]
rs560051	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs562428	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs564961	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs565825	0.86[JPT][hapmap]
rs570442	0.83[JPT][hapmap]
rs577001	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs580011	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs585022	0.83[CHB][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes]
rs600739	0.81[JPT][hapmap]
rs628488	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638407	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs652807	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs652921	0.87[JPT][hapmap]
rs6570965	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs663625	0.87[JPT][hapmap]
rs909793	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs9285519	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9322178	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373589	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9373592	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9377210	0.81[AMR][1000 genomes]
rs9377212	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9377218	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs9390676	0.86[JPT][hapmap]
rs9390677	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9404034	0.87[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024106	chr6:149622349-149745053	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	esv3474315	chr6:149676657-149685845	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv3474316	chr6:149676766-149685718	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149641200-149681400	Weak transcription	Fetal Stomach	stomach
2	chr6:149649400-149689400	Weak transcription	Fetal Brain Female	brain
3	chr6:149656800-149681400	Weak transcription	Psoas Muscle	Psoas
4	chr6:149656800-149682400	Weak transcription	Lung	lung
5	chr6:149656800-149694400	Weak transcription	Placenta	Placenta
6	chr6:149657800-149683800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr6:149657800-149691200	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:149658000-149680800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:149658000-149681400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr6:149658000-149695400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:149658200-149691000	Weak transcription	NHDF-Ad	bronchial
12	chr6:149658800-149692400	Weak transcription	Fetal Kidney	kidney
13	chr6:149659200-149685200	Weak transcription	Ovary	ovary
14	chr6:149659200-149691400	Weak transcription	Fetal Muscle Trunk	muscle
15	chr6:149659600-149684200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr6:149660400-149682200	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:149660400-149682400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr6:149660400-149685600	Weak transcription	Pancreas	Pancrea
19	chr6:149660400-149699200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:149662200-149694800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr6:149663400-149685400	Weak transcription	Fetal Lung	lung
22	chr6:149663800-149685400	Weak transcription	Brain Anterior Caudate	brain
23	chr6:149664000-149682600	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr6:149664000-149687400	Weak transcription	HSMM	muscle
25	chr6:149664000-149694400	Weak transcription	Duodenum Mucosa	Duodenum
26	chr6:149664600-149681400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr6:149664600-149687400	Weak transcription	Right Ventricle	heart
28	chr6:149665600-149680400	Weak transcription	Brain Germinal Matrix	brain
29	chr6:149665800-149680400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:149666000-149680400	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr6:149666200-149685400	Weak transcription	Brain Cingulate Gyrus	brain
32	chr6:149666400-149683400	Weak transcription	NHEK	skin
33	chr6:149667400-149684200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr6:149667400-149685600	Weak transcription	Stomach Mucosa	stomach
35	chr6:149667600-149691000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:149668400-149682400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:149668600-149679400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr6:149668600-149680000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr6:149668600-149681400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:149668600-149683400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr6:149669000-149685400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr6:149669400-149690400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr6:149670600-149681400	Weak transcription	Fetal Intestine Small	intestine
44	chr6:149671600-149681600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
45	chr6:149671600-149681800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
46	chr6:149672400-149686800	Weak transcription	Primary B cells from peripheral blood	blood
47	chr6:149674200-149680400	Weak transcription	Brain Substantia Nigra	brain
48	chr6:149674200-149691000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr6:149674400-149681600	Weak transcription	Adipose Nuclei	Adipose
50	chr6:149674400-149682200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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