Variant report

Variant	rs9390643
Chromosome Location	chr6:149267234-149267235
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149151917..149153871-chr6:149267046..149269018,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10080254	1.00[CEU][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1038348	0.94[CHD][hapmap];0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs12175861	0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs17080004	0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs17080152	0.82[TSI][hapmap]
rs17080185	0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs17080323	0.85[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs17666460	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs17728886	1.00[CEU][hapmap];0.91[TSI][hapmap];0.96[EUR][1000 genomes]
rs1964571	0.94[CHD][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs3734374	0.85[JPT][hapmap];0.90[ASN][1000 genomes]
rs6917705	0.91[ASN][1000 genomes]
rs6941568	0.84[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9373582	0.93[GIH][hapmap];0.85[JPT][hapmap];0.83[LWK][hapmap];0.91[MEX][hapmap];0.97[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9377180	0.91[ASN][1000 genomes]
rs9390635	0.89[ASN][1000 genomes]
rs9390636	0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs9390637	0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs9390638	0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs9390641	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9390642	0.90[ASN][1000 genomes]
rs9399676	0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs9399677	0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs9404006	0.94[CHD][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs9404008	0.87[ASN][1000 genomes]
rs9498182	1.00[CEU][hapmap];0.89[EUR][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	nsv1032690	chr6:149206106-149398712	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149247800-149268800	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr6:149254800-149268800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:149255600-149268600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr6:149255800-149268800	Weak transcription	Brain Substantia Nigra	brain
5	chr6:149255800-149268800	Weak transcription	Fetal Kidney	kidney
6	chr6:149256600-149292600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr6:149257000-149268400	Weak transcription	Ovary	ovary
8	chr6:149257000-149285000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:149257600-149269000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr6:149257600-149276200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:149259200-149269000	Weak transcription	Dnd41	blood
12	chr6:149260400-149268600	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr6:149261400-149285000	Weak transcription	Spleen	Spleen
14	chr6:149262000-149289600	Weak transcription	Aorta	Aorta
15	chr6:149262200-149276200	Weak transcription	Pancreas	Pancrea
16	chr6:149263400-149268400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr6:149263400-149268600	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr6:149263400-149268600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr6:149263400-149268800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr6:149263400-149268800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:149263400-149269200	Weak transcription	Left Ventricle	heart
22	chr6:149263400-149275400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:149263400-149275600	Weak transcription	Primary B cells from cord blood	blood
24	chr6:149263400-149275600	Weak transcription	Primary B cells from peripheral blood	blood
25	chr6:149263400-149275600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr6:149264000-149268600	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr6:149264600-149268800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr6:149265200-149270800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr6:149265600-149268400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr6:149265600-149268800	Weak transcription	Fetal Heart	heart
31	chr6:149266000-149268600	Weak transcription	Fetal Muscle Leg	muscle
32	chr6:149266600-149268800	Weak transcription	Rectal Smooth Muscle	rectum
33	chr6:149266800-149268600	Weak transcription	Colon Smooth Muscle	Colon
34	chr6:149266800-149276200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr6:149267000-149268800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:149267000-149268800	Weak transcription	Fetal Lung	lung
37	chr6:149267000-149269000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:149267000-149276400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr6:149267200-149271000	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr6:149267200-149273200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:149267200-149273400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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