Variant report

Variant	rs35576079
Chromosome Location	chr3:119450594-119450595
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:119421793..119424164-chr3:119448930..119450686,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183833	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10511394	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1129708	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11926554	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13072420	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13086843	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1464599	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2461829	0.82[ASN][1000 genomes]
rs2461830	0.83[ASN][1000 genomes]
rs28424110	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34333922	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34490729	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34787921	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34948068	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35017263	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35246961	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4687882	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4688032	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4688033	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60639590	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66840889	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6770006	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9289134	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9682652	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9815093	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9817024	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9821892	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9865270	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]

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	nsv460834	chr3:119384163-119458851	Active TSS Strong transcription Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv591390	chr3:119384163-119458851	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1011178	chr3:119437192-119589116	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv536703	chr3:119437192-119589116	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119422200-119458200	Weak transcription	Aorta	Aorta
2	chr3:119423000-119463000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:119423000-119464400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:119423200-119464200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:119423200-119471600	Weak transcription	Fetal Kidney	kidney
6	chr3:119423400-119458200	Weak transcription	Brain Substantia Nigra	brain
7	chr3:119428800-119469200	Weak transcription	Stomach Smooth Muscle	stomach
8	chr3:119431200-119470400	Weak transcription	Gastric	stomach
9	chr3:119435400-119478200	Weak transcription	Colon Smooth Muscle	Colon
10	chr3:119436800-119450600	Weak transcription	Brain Anterior Caudate	brain
11	chr3:119436800-119462800	Weak transcription	Pancreas	Pancrea
12	chr3:119444000-119453000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
13	chr3:119449000-119450600	Weak transcription	Ovary	ovary
14	chr3:119450000-119450800	Enhancers	Psoas Muscle	Psoas
15	chr3:119450200-119451200	Enhancers	Fetal Brain Male	brain
16	chr3:119450400-119450600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr3:119450400-119451000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:119450400-119451000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:119450400-119451000	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr3:119450400-119451200	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr3:119450400-119451200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr3:119450400-119451200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:119450400-119451200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr3:119450400-119451200	Enhancers	Fetal Brain Female	brain
25	chr3:119450400-119451200	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr3:119450400-119451200	Enhancers	NH-A	brain
27	chr3:119450400-119451400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr3:119450400-119451400	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr3:119450400-119451600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr3:119450400-119452400	Enhancers	HUVEC	blood vessel
31	chr3:119450400-119452600	Enhancers	Muscle Satellite Cultured Cells	--
32	chr3:119450400-119463000	Weak transcription	Brain Hippocampus Middle	brain

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