Variant report

Variant	rs9399677
Chromosome Location	chr6:149260199-149260200
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	chr6:149193733..149196299-chr6:149257305..149260279,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1038348	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10499256	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs12175861	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17080004	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17080152	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17080185	0.86[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17080323	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17728703	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1964571	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3734374	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6917705	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6941568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373582	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9377180	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390635	0.97[ASN][1000 genomes]
rs9390636	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9390637	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9390638	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9390641	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9390642	1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9390643	0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs9399676	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9404006	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9404008	0.95[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	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:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149243600-149262600	Weak transcription	Primary B cells from cord blood	blood
2	chr6:149246000-149262600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:149246800-149262400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr6:149247800-149268800	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr6:149253800-149262600	Weak transcription	Primary B cells from peripheral blood	blood
6	chr6:149254800-149268800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr6:149255600-149268600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:149255800-149262600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr6:149255800-149262800	Weak transcription	Left Ventricle	heart
10	chr6:149255800-149264800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr6:149255800-149268800	Weak transcription	Brain Substantia Nigra	brain
12	chr6:149255800-149268800	Weak transcription	Fetal Kidney	kidney
13	chr6:149256400-149264800	Weak transcription	Fetal Heart	heart
14	chr6:149256400-149266400	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr6:149256600-149292600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr6:149256800-149264400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:149257000-149268400	Weak transcription	Ovary	ovary
18	chr6:149257000-149285000	Weak transcription	Stomach Smooth Muscle	stomach
19	chr6:149257200-149261800	Weak transcription	Aorta	Aorta
20	chr6:149257200-149266000	Weak transcription	Fetal Lung	lung
21	chr6:149257400-149263000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:149257600-149263000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:149257600-149264400	Weak transcription	HSMMtube	muscle
24	chr6:149257600-149265000	Weak transcription	Fetal Muscle Leg	muscle
25	chr6:149257600-149266400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr6:149257600-149269000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr6:149257600-149276200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:149257800-149263000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr6:149257800-149264000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr6:149257800-149264200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:149258000-149262400	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr6:149259200-149269000	Weak transcription	Dnd41	blood
33	chr6:149259400-149261800	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr6:149259400-149262600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr6:149259400-149264000	Weak transcription	Rectal Smooth Muscle	rectum
36	chr6:149259400-149264400	Weak transcription	Colon Smooth Muscle	Colon
37	chr6:149259800-149264200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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