Variant report

Variant	rs6936401
Chromosome Location	chr6:132823527-132823528
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	chr6:132821641..132824137-chr6:132824492..132826166,2	MCF-7	breast:
2	chr6:132817554..132819647-chr6:132823337..132824996,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs17061361	1.00[CEU][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17192117	0.87[CEU][hapmap];0.83[EUR][1000 genomes]
rs1856352	1.00[CEU][hapmap]
rs4895940	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4895941	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4897588	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4897589	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58115479	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62424914	0.86[EUR][1000 genomes]
rs62424917	0.94[EUR][1000 genomes]
rs62424918	0.85[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62424919	0.84[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62424931	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62424933	0.85[ASN][1000 genomes]
rs62424934	0.92[EUR][1000 genomes]
rs62424935	0.89[EUR][1000 genomes]
rs6569804	0.99[ASN][1000 genomes]
rs6906663	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6909378	0.83[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6924741	0.92[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6931831	0.83[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6939077	1.00[CEU][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7757421	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7758170	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.89[MEX][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7758434	0.83[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9483468	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9483470	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9483473	0.84[AFR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9493339	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9493342	0.82[AFR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9493343	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9493344	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9493345	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532069	chr6:132776411-133462292	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:132811600-132826000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:132811600-132832200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:132812800-132828800	Weak transcription	Fetal Brain Male	brain
4	chr6:132812800-132832000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr6:132813000-132833600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:132813200-132826800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:132813400-132825400	Weak transcription	Gastric	stomach
8	chr6:132813400-132825400	Weak transcription	Pancreas	Pancrea
9	chr6:132813600-132824800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr6:132814800-132825600	Weak transcription	Psoas Muscle	Psoas
11	chr6:132817400-132831800	Genic enhancers	Primary B cells from peripheral blood	blood
12	chr6:132817800-132824800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
13	chr6:132818000-132824800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:132818000-132824800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr6:132818200-132824800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:132818200-132826000	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr6:132818200-132832400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:132818400-132824600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr6:132818400-132824600	Strong transcription	HSMM	muscle
20	chr6:132818400-132825000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr6:132818400-132825000	Strong transcription	Rectal Mucosa Donor 29	rectum
22	chr6:132818600-132823800	Strong transcription	HepG2	liver
23	chr6:132818600-132824000	Strong transcription	Primary T cells from cord blood	blood
24	chr6:132818600-132824800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:132818800-132824000	Strong transcription	Fetal Muscle Trunk	muscle
26	chr6:132818800-132824400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr6:132819000-132824600	Strong transcription	HUVEC	blood vessel
28	chr6:132819000-132824800	Strong transcription	Fetal Brain Female	brain
29	chr6:132819200-132824600	Strong transcription	Primary T cells fromperipheralblood	blood
30	chr6:132819800-132824600	Strong transcription	Fetal Intestine Large	intestine
31	chr6:132820000-132823800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr6:132820000-132824400	Strong transcription	Stomach Smooth Muscle	stomach
33	chr6:132820000-132824600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:132820000-132824600	Strong transcription	Osteobl	bone
35	chr6:132820200-132824600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr6:132820200-132824600	Strong transcription	Fetal Thymus	thymus
37	chr6:132820200-132825600	Weak transcription	Small Intestine	intestine
38	chr6:132820400-132825400	Weak transcription	Fetal Heart	heart
39	chr6:132820600-132832000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr6:132820800-132824200	Strong transcription	Fetal Stomach	stomach
41	chr6:132820800-132829400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr6:132821000-132823600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr6:132821000-132823600	Strong transcription	Brain Germinal Matrix	brain
44	chr6:132821000-132824000	Strong transcription	Fetal Muscle Leg	muscle
45	chr6:132821000-132824200	Strong transcription	Fetal Intestine Small	intestine
46	chr6:132821000-132824600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr6:132821000-132824600	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr6:132821000-132824600	Strong transcription	NH-A	brain
49	chr6:132821000-132824800	Strong transcription	HUES48 Cell Line	embryonic stem cell
50	chr6:132821200-132824600	Strong transcription	NHDF-Ad	bronchial

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