Variant report

Variant	rs11969359
Chromosome Location	chr6:15456184-15456185
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:170078280..170080428-chr6:15454966..15457286,2	MCF-7	breast:
2	chr6:15451813..15454301-chr6:15454611..15456200,2	MCF-7	breast:
3	chr6:15446478..15449209-chr6:15454925..15456777,2	K562	blood:
4	chr6:15454081..15456241-chr6:15460942..15462977,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136603	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10484354	0.89[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11961516	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11961748	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11961827	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11963285	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964758	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11965505	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16876316	0.89[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16876327	1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16876361	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35438327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35801290	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3857641	1.00[MEX][hapmap]
rs60535196	0.93[AFR][1000 genomes]
rs6904997	1.00[MEX][hapmap]
rs6905116	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6922136	1.00[MEX][hapmap]
rs73365205	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73365221	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73365227	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73365229	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73365234	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73367315	1.00[AMR][1000 genomes]
rs7743283	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7748631	0.84[YRI][hapmap]
rs7757154	0.89[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7767966	0.86[YRI][hapmap]
rs7769123	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
2	chr6:15439000-15458000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:15440000-15468600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr6:15444600-15477400	Weak transcription	Hela-S3	cervix
5	chr6:15444800-15457200	Weak transcription	Fetal Heart	heart
6	chr6:15444800-15468800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:15445400-15457600	Weak transcription	Fetal Brain Male	brain
8	chr6:15445400-15458600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr6:15445400-15474000	Weak transcription	NH-A	brain
10	chr6:15445600-15462600	Weak transcription	NHLF	lung
11	chr6:15445800-15460000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:15446000-15456200	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr6:15446000-15459200	Weak transcription	Ovary	ovary
14	chr6:15446000-15462800	Weak transcription	HSMMtube	muscle
15	chr6:15446600-15479800	Weak transcription	Gastric	stomach
16	chr6:15446800-15458600	Weak transcription	Right Ventricle	heart
17	chr6:15447800-15460400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:15448200-15479800	Weak transcription	Pancreas	Pancrea
19	chr6:15449000-15458600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:15449600-15457400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr6:15449600-15457400	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr6:15449600-15458600	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr6:15449800-15457400	Weak transcription	Brain Angular Gyrus	brain
24	chr6:15449800-15457600	Weak transcription	Placenta	Placenta
25	chr6:15449800-15462800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr6:15450000-15456200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:15450000-15457000	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr6:15450000-15458600	Weak transcription	Spleen	Spleen
29	chr6:15450600-15457200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:15452000-15459200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr6:15452200-15457200	Weak transcription	Brain Germinal Matrix	brain
32	chr6:15452400-15475800	Weak transcription	Aorta	Aorta
33	chr6:15452600-15457800	Weak transcription	Small Intestine	intestine
34	chr6:15453000-15456200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr6:15453000-15456600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
36	chr6:15453000-15460800	Strong transcription	Monocytes-CD14+_RO01746	blood
37	chr6:15453000-15463000	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr6:15453000-15468600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr6:15453000-15481000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr6:15453600-15459000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr6:15453600-15459200	Enhancers	Skeletal Muscle Female	skeletal muscle
42	chr6:15453600-15468800	Weak transcription	Dnd41	blood
43	chr6:15453800-15456200	Strong transcription	Primary T helper cells PMA-I stimulated	--
44	chr6:15453800-15457600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr6:15453800-15457600	Weak transcription	Fetal Brain Female	brain
46	chr6:15453800-15459200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:15453800-15462600	Weak transcription	Osteobl	bone
48	chr6:15453800-15462800	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr6:15454000-15461600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr6:15454000-15462600	Weak transcription	Rectal Mucosa Donor 31	rectum

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