Variant report

Variant	rs7621905
Chromosome Location	chr3:105178856-105178857
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	chr3:105178189..105179780-chr3:105181894..105183601,2	MCF-7	breast:
2	chr3:105166673..105169567-chr3:105177342..105179589,2	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1038522	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1044240	1.00[JPT][hapmap];0.82[MEX][hapmap];0.87[ASN][1000 genomes]
rs11714319	0.93[ASN][1000 genomes]
rs2049217	1.00[JPT][hapmap];0.82[MEX][hapmap];0.87[ASN][1000 genomes]
rs3772557	0.87[ASN][1000 genomes]
rs62260776	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62260827	0.87[ASN][1000 genomes]
rs62262969	0.87[ASN][1000 genomes]
rs62263560	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62263605	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62263606	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62263608	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6437601	1.00[JPT][hapmap];0.82[MEX][hapmap];0.87[ASN][1000 genomes]
rs6764212	0.94[CEU][hapmap];0.94[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6765258	0.87[ASN][1000 genomes]
rs6778460	0.93[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6804574	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175483	0.87[ASN][1000 genomes]
rs73175493	0.87[ASN][1000 genomes]
rs73189010	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7431531	1.00[LWK][hapmap];1.00[MKK][hapmap];0.81[AFR][1000 genomes]
rs9288802	0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 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
4	nsv534224	chr3:105141696-105404293	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105144400-105185000	Weak transcription	Aorta	Aorta
2	chr3:105167800-105185000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr3:105168200-105179400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:105175200-105184800	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr3:105175400-105179000	Weak transcription	Liver	Liver
6	chr3:105175400-105184400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr3:105175600-105179000	Weak transcription	Brain Anterior Caudate	brain
8	chr3:105175800-105179000	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:105177000-105179600	Enhancers	Osteobl	bone
10	chr3:105177200-105179200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:105177200-105179600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:105177400-105179400	Enhancers	NH-A	brain
13	chr3:105177400-105180000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:105177400-105180200	Enhancers	Muscle Satellite Cultured Cells	--
15	chr3:105177600-105179000	Enhancers	HMEC	breast
16	chr3:105177600-105179000	Enhancers	HSMM	muscle
17	chr3:105177600-105179200	Enhancers	NHDF-Ad	bronchial
18	chr3:105177600-105179200	Enhancers	NHLF	lung
19	chr3:105177600-105180600	Enhancers	Brain Substantia Nigra	brain
20	chr3:105177800-105179000	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr3:105177800-105179200	Enhancers	Pancreatic Islets	Pancreatic Islet
22	chr3:105177800-105179600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr3:105177800-105180600	Enhancers	Brain Angular Gyrus	brain
24	chr3:105178000-105179000	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr3:105178000-105180600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr3:105178200-105179200	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr3:105178200-105179400	Enhancers	Primary neutrophils fromperipheralblood	blood
28	chr3:105178200-105180600	Enhancers	Brain Cingulate Gyrus	brain
29	chr3:105178400-105179000	Enhancers	HUVEC	blood vessel
30	chr3:105178400-105179400	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr3:105178600-105179200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr3:105178600-105179400	Enhancers	A549	lung
33	chr3:105178600-105180000	Enhancers	HUES48 Cell Line	embryonic stem cell
34	chr3:105178800-105179000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr3:105178800-105179000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr3:105178800-105179000	Enhancers	Primary B cells from cord blood	blood
37	chr3:105178800-105179200	Enhancers	HUES64 Cell Line	embryonic stem cell
38	chr3:105178800-105179400	Enhancers	iPS-15b Cell Line	embryonic stem cell

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