Variant report

Variant	rs9487109
Chromosome Location	chr6:109757526-109757527
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:109757170-109758744	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr6:109756949-109757624	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:109755900..109759113-chr6:109760239..109764541,6	MCF-7	breast:
2	chr6:109751127..109754853-chr6:109756908..109760360,4	K562	blood:
3	chr6:109756751..109759661-chr6:109767137..109769430,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000239160	TF binding region
SMPD2	TF binding region
ENSG00000135587	Chromatin interaction
ENSG00000185250	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10080925	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13437492	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17070554	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17070590	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1998410	0.85[ASN][1000 genomes]
rs1998411	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2146411	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2177092	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2275649	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3757229	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3757237	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41288560	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4946968	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4946971	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4946972	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4946975	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4946977	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6907769	0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs749621	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs752260	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9480934	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9480954	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487074	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9487083	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487087	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487099	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9487106	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[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	nsv823818	chr6:109757222-109761294	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109721200-109760600	Weak transcription	Fetal Brain Female	brain
2	chr6:109725800-109760800	Weak transcription	Brain Anterior Caudate	brain
3	chr6:109736600-109760800	Weak transcription	Brain Angular Gyrus	brain
4	chr6:109745600-109760800	Weak transcription	Gastric	stomach
5	chr6:109750800-109760200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:109750800-109760400	Weak transcription	Ovary	ovary
7	chr6:109750800-109760800	Weak transcription	Brain Substantia Nigra	brain
8	chr6:109751000-109760200	Weak transcription	Osteobl	bone
9	chr6:109751000-109760800	Weak transcription	Right Atrium	heart
10	chr6:109751200-109760400	Weak transcription	Fetal Muscle Leg	muscle
11	chr6:109751200-109761400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr6:109751400-109760800	Weak transcription	Fetal Stomach	stomach
13	chr6:109751600-109760400	Weak transcription	NHEK	skin
14	chr6:109753800-109760800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:109754000-109760800	Weak transcription	Pancreas	Pancrea
16	chr6:109754200-109758400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:109754800-109760400	Weak transcription	K562	blood
18	chr6:109754800-109760600	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr6:109755200-109758200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:109756000-109760800	Weak transcription	Spleen	Spleen
21	chr6:109756200-109760200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:109756200-109760400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr6:109756400-109758400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr6:109756400-109760600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr6:109756800-109761400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr6:109757200-109757600	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr6:109757200-109760400	Weak transcription	Fetal Intestine Small	intestine
28	chr6:109757200-109760600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr6:109757400-109757800	Enhancers	Primary monocytes fromperipheralblood	blood

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