Variant report

Variant	rs6440983
Chromosome Location	chr3:155135667-155135668
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:155125953..155128553-chr3:155134009..155136555,2	MCF-7	breast:
2	chr3:155134212..155136487-chr3:155137053..155139235,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11918635	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs11925808	1.00[CEU][hapmap];0.81[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11928539	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs16824965	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs16824986	1.00[ASN][1000 genomes]
rs16824992	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs16825048	1.00[CEU][hapmap]
rs28503947	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28742885	0.90[EUR][1000 genomes]
rs34828234	1.00[ASN][1000 genomes]
rs36052772	0.96[AFR][1000 genomes]
rs4302412	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4352412	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4352413	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4392458	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4630983	1.00[CEU][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57461710	1.00[ASN][1000 genomes]
rs57825069	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57985049	1.00[ASN][1000 genomes]
rs58523386	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6440982	1.00[CEU][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6440984	1.00[CEU][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6764943	1.00[CEU][hapmap]
rs6772219	0.86[AFR][1000 genomes]
rs6777732	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6782818	0.95[YRI][hapmap];0.95[AFR][1000 genomes]
rs6786372	1.00[AFR][1000 genomes]
rs6789445	0.89[AFR][1000 genomes]
rs6791188	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6791222	1.00[CEU][hapmap];0.81[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6802130	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6802336	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6805227	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73009792	1.00[ASN][1000 genomes]
rs73011512	1.00[ASN][1000 genomes]
rs73011513	1.00[ASN][1000 genomes]
rs73011515	1.00[ASN][1000 genomes]
rs73011525	1.00[ASN][1000 genomes]
rs73873187	1.00[ASN][1000 genomes]
rs7637223	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7639284	0.95[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999994	chr3:154579254-155175303	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv532664	chr3:154588346-155162615	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv1000753	chr3:154848433-155207022	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
4	nsv536773	chr3:154848433-155207022	Enhancers Strong transcription Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
5	nsv877679	chr3:155128968-155204939	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155131000-155138800	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr3:155131200-155136000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:155133600-155136400	Enhancers	HMEC	breast
4	chr3:155134000-155136000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:155134000-155136000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:155134000-155136000	Enhancers	NHEK	skin
7	chr3:155134000-155136400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:155135000-155135800	Enhancers	A549	lung
9	chr3:155135000-155136600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:155135000-155138200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr3:155135200-155136200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr3:155135200-155138000	Weak transcription	Osteobl	bone
13	chr3:155135400-155136800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:155135400-155137000	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr3:155135400-155138800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr3:155135600-155136400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:155135600-155137600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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