Variant report

Variant	rs7769631
Chromosome Location	chr6:15264368-15264369
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:15244539..15247291-chr6:15263488..15266119,3	MCF-7	breast:
2	chr6:15256517..15259439-chr6:15263746..15265326,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000271888	Chromatin interaction
ENSG00000008083	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1000399	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11962776	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11965232	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11966818	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11968080	0.90[YRI][hapmap]
rs16876166	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16876169	0.89[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16876182	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17712950	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4310061	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57650809	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59272746	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60410720	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6941059	0.91[YRI][hapmap]
rs724971	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73359692	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73359693	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]

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	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv538142	chr6:15243960-15404893	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15251200-15279400	Weak transcription	A549	lung
2	chr6:15253200-15269600	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr6:15254200-15269600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:15254600-15264800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr6:15254800-15269800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:15256000-15264600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr6:15256400-15265400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr6:15257000-15265200	Weak transcription	Liver	Liver
9	chr6:15257000-15265200	Weak transcription	Lung	lung
10	chr6:15257000-15265200	Weak transcription	Pancreas	Pancrea
11	chr6:15257800-15265200	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr6:15257800-15270000	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr6:15258200-15265200	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr6:15258200-15268600	Enhancers	NHDF-Ad	bronchial
15	chr6:15258800-15267000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr6:15258800-15268800	Weak transcription	Aorta	Aorta
17	chr6:15258800-15270400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:15259400-15264400	Weak transcription	Fetal Kidney	kidney
19	chr6:15259800-15264800	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr6:15260800-15265800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:15261000-15264400	Weak transcription	Stomach Mucosa	stomach
22	chr6:15261000-15283800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr6:15261200-15275000	Weak transcription	HMEC	breast
24	chr6:15261400-15265200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr6:15261600-15264600	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr6:15261600-15264800	Weak transcription	Rectal Smooth Muscle	rectum
27	chr6:15261600-15268000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr6:15261600-15270000	Enhancers	Primary T cells fromperipheralblood	blood
29	chr6:15261600-15270600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
30	chr6:15261800-15264400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:15261800-15265000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr6:15261800-15265200	Weak transcription	Fetal Intestine Small	intestine
33	chr6:15262000-15264600	Weak transcription	Small Intestine	intestine
34	chr6:15262000-15265200	Enhancers	Primary neutrophils fromperipheralblood	blood
35	chr6:15262400-15265400	Enhancers	Primary B cells from cord blood	blood
36	chr6:15262400-15266000	Enhancers	Primary hematopoietic stem cells	blood
37	chr6:15262400-15268000	Enhancers	NHLF	lung
38	chr6:15262400-15270200	Enhancers	Primary T helper naive cells from peripheral blood	blood
39	chr6:15262600-15264400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr6:15262600-15265000	Enhancers	Skeletal Muscle Female	skeletal muscle
41	chr6:15262600-15265000	Weak transcription	Osteobl	bone
42	chr6:15262600-15269600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr6:15262800-15264400	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr6:15262800-15265000	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr6:15262800-15266400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr6:15262800-15270000	Enhancers	Fetal Thymus	thymus
47	chr6:15262800-15270000	Enhancers	Spleen	Spleen
48	chr6:15262800-15270200	Enhancers	Primary T killer memory cells from peripheral blood	blood
49	chr6:15262800-15271200	Enhancers	Primary B cells from peripheral blood	blood
50	chr6:15263000-15264400	Enhancers	Primary T cells from cord blood	blood

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