Variant report

Variant	rs1036581
Chromosome Location	chr3:105136604-105136605
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	chr3:105131124..105132764-chr3:105135409..105137743,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12488994	0.82[CHD][hapmap]
rs13100098	0.82[CHD][hapmap]
rs13100997	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1438538	0.82[CHD][hapmap]
rs2033802	1.00[ASW][hapmap];0.92[CEU][hapmap];0.88[CHD][hapmap];0.98[GIH][hapmap];0.98[LWK][hapmap];1.00[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2053307	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4894924	0.88[ASW][hapmap];0.89[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.82[LWK][hapmap];0.81[TSI][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6767277	0.82[CHD][hapmap]
rs6769302	0.82[CHD][hapmap]
rs6779807	0.82[CHD][hapmap]
rs6790159	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7428824	0.91[CEU][hapmap];0.89[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7431531	0.82[CHD][hapmap]
rs7641185	0.94[ASW][hapmap];0.92[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.92[LWK][hapmap];0.93[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9288803	1.00[ASW][hapmap];0.98[LWK][hapmap];0.82[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs9827147	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9827196	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9864062	0.85[CEU][hapmap];0.89[CHB][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9870921	0.85[CEU][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];0.91[GIH][hapmap];0.85[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv877304	chr3:105122214-105198374	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105134400-105136800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:105134400-105136800	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:105134400-105141400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:105134400-105145400	Weak transcription	Brain Angular Gyrus	brain
5	chr3:105135000-105137200	Enhancers	HUVEC	blood vessel
6	chr3:105135000-105137600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr3:105135000-105141400	Weak transcription	Brain Anterior Caudate	brain
8	chr3:105135000-105145800	Weak transcription	Brain Substantia Nigra	brain
9	chr3:105135200-105137000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr3:105135200-105152000	Weak transcription	NH-A	brain
11	chr3:105135400-105137400	Enhancers	Primary B cells from cord blood	blood
12	chr3:105135600-105137400	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr3:105135600-105139400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr3:105135800-105136800	Enhancers	Primary B cells from peripheral blood	blood
15	chr3:105135800-105137200	Enhancers	NHEK	skin
16	chr3:105135800-105137400	Enhancers	Primary hematopoietic stem cells	blood
17	chr3:105135800-105137400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:105135800-105137600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr3:105136400-105136800	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr3:105136400-105137000	Enhancers	GM12878-XiMat	blood
21	chr3:105136600-105136800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr3:105136600-105137000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr3:105136600-105137000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
24	chr3:105136600-105137200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr3:105136600-105137200	Enhancers	HMEC	breast
26	chr3:105136600-105137200	Enhancers	HSMM	muscle
27	chr3:105136600-105137200	Enhancers	Osteobl	bone
28	chr3:105136600-105137400	Enhancers	Muscle Satellite Cultured Cells	--
29	chr3:105136600-105137400	Enhancers	A549	lung

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