Variant report

Variant	rs1036583
Chromosome Location	chr3:105082048-105082049
allele	G/T
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	FOS	chr3:105081802-105082059	MCF10A-Er-Src	breast:	n/a	chr3:105081942-105081953
2	FOS	chr3:105080998-105082114	MCF10A-Er-Src	breast:	n/a	chr3:105081047-105081054 chr3:105081619-105081628 chr3:105081046-105081054 chr3:105081317-105081327 chr3:105081942-105081953 chr3:105081042-105081053 chr3:105081299-105081310 chr3:105081316-105081327 chr3:105081317-105081327

Variant related genes	Relation type
ALCAM	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10049426	0.91[CEU][hapmap];0.86[CHB][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1036582	0.91[CEU][hapmap];0.86[CHB][hapmap];0.96[GIH][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10511243	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs10933816	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10933817	0.87[CEU][hapmap];0.86[CHB][hapmap]
rs12488994	0.87[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.85[LWK][hapmap];0.81[MKK][hapmap];0.81[TSI][hapmap];0.83[AMR][1000 genomes]
rs12491980	0.83[AMR][1000 genomes]
rs12494392	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs13062366	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13093663	0.91[CEU][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13097669	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13100098	0.87[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.85[LWK][hapmap];0.90[MKK][hapmap]
rs1438538	0.87[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.85[LWK][hapmap];0.90[MKK][hapmap];0.81[TSI][hapmap];0.83[AMR][1000 genomes]
rs1438545	0.82[ASN][1000 genomes]
rs1530069	0.83[AMR][1000 genomes]
rs1898654	0.87[CEU][hapmap];1.00[CHB][hapmap];0.84[YRI][hapmap]
rs2164956	0.91[CEU][hapmap];0.86[CHB][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2178407	0.87[CEU][hapmap];0.88[CHB][hapmap];0.88[CHD][hapmap];0.89[MEX][hapmap];0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2196745	0.87[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2399045	0.81[AMR][1000 genomes]
rs28670976	0.81[EUR][1000 genomes]
rs4426702	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4894831	0.91[CEU][hapmap];0.86[CHB][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4894921	0.89[ASN][1000 genomes]
rs57834585	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6437587	0.90[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6437589	0.91[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6767277	0.87[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.85[LWK][hapmap];0.90[MKK][hapmap];0.81[TSI][hapmap];0.83[AMR][1000 genomes]
rs6767814	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6769302	0.91[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.96[GIH][hapmap];0.82[LWK][hapmap];0.88[MEX][hapmap];0.97[TSI][hapmap];0.84[EUR][1000 genomes]
rs6779807	0.87[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.85[LWK][hapmap];0.90[MKK][hapmap];0.81[TSI][hapmap];0.83[AMR][1000 genomes]
rs6780238	0.83[AMR][1000 genomes]
rs6806304	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs7431531	0.86[CHB][hapmap];0.83[CHD][hapmap];0.90[GIH][hapmap];0.88[MEX][hapmap]
rs7615005	0.87[CEU][hapmap];0.86[CHB][hapmap];0.83[AMR][1000 genomes]
rs7629589	0.86[CEU][hapmap];0.86[CHB][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7644273	0.95[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.83[LWK][hapmap];0.89[MEX][hapmap];0.92[MKK][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7647011	0.95[CEU][hapmap];0.86[CHB][hapmap]
rs7649033	0.87[CEU][hapmap];0.86[CHB][hapmap]
rs9288802	0.85[LWK][hapmap];0.90[MKK][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs975574	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9842028	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9851952	0.85[CEU][hapmap];1.00[CHB][hapmap];0.83[YRI][hapmap]
rs9883620	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105073400-105084400	Weak transcription	Aorta	Aorta
2	chr3:105074400-105083600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:105074800-105083000	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:105076200-105083600	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr3:105077400-105082800	Enhancers	Muscle Satellite Cultured Cells	--
6	chr3:105077800-105083800	Enhancers	Osteobl	bone
7	chr3:105077800-105084000	Enhancers	HSMM	muscle
8	chr3:105078000-105083800	Enhancers	NHEK	skin
9	chr3:105078600-105082200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:105078600-105084200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr3:105078600-105084400	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr3:105078600-105084400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr3:105078600-105084800	Weak transcription	Hela-S3	cervix
14	chr3:105078800-105083000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:105079000-105084000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr3:105079000-105084400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr3:105079600-105084000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr3:105079800-105083200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr3:105080400-105082200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:105080400-105083400	Enhancers	NH-A	brain
21	chr3:105080400-105084200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr3:105080600-105082200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr3:105080600-105083800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:105081000-105082200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:105081000-105082800	Enhancers	A549	lung
26	chr3:105081000-105084200	Enhancers	NHLF	lung
27	chr3:105081200-105082200	Enhancers	Primary hematopoietic stem cells	blood
28	chr3:105081200-105082800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr3:105081200-105084000	Enhancers	HMEC	breast
30	chr3:105081400-105083800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr3:105081600-105082400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:105081600-105083000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr3:105081600-105084400	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr3:105081800-105084000	Enhancers	HUVEC	blood vessel
35	chr3:105082000-105082800	Weak transcription	NHDF-Ad	bronchial
36	chr3:105082000-105083800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr3:105082000-105084200	Weak transcription	HSMMtube	muscle

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