Variant report

Variant	rs1976366
Chromosome Location	chr3:46154492-46154493
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	chr3:46148560..46157677-chr3:46203034..46208483,12	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183625	Chromatin interaction

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs11130085	0.90[ASN][1000 genomes]
rs11130086	0.91[ASN][1000 genomes]
rs1118879	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11917890	0.90[ASN][1000 genomes]
rs11929281	0.90[ASN][1000 genomes]
rs12485978	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12496322	0.90[ASN][1000 genomes]
rs12629632	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12637023	0.90[ASN][1000 genomes]
rs13060901	0.81[EUR][1000 genomes]
rs13065737	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13073861	0.93[ASN][1000 genomes]
rs13077099	0.90[ASN][1000 genomes]
rs13077923	0.92[ASN][1000 genomes]
rs13078053	0.93[ASN][1000 genomes]
rs13082280	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13098271	0.81[ASN][1000 genomes]
rs13434029	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13434336	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1392290	0.81[EUR][1000 genomes]
rs1491959	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1500005	0.81[ASN][1000 genomes]
rs1546077	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1546078	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1602579	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1604069	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17078577	0.90[ASN][1000 genomes]
rs1909595	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1909596	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1976367	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2131091	0.92[ASN][1000 genomes]
rs2201984	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2220678	0.92[ASN][1000 genomes]
rs2373150	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2373151	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2373153	0.90[ASN][1000 genomes]
rs2373154	0.85[ASN][1000 genomes]
rs34067839	0.92[ASN][1000 genomes]
rs34381514	0.81[ASN][1000 genomes]
rs34906043	0.81[ASN][1000 genomes]
rs35359253	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35435608	0.81[ASN][1000 genomes]
rs35462017	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35567508	0.93[ASN][1000 genomes]
rs35657218	0.81[ASN][1000 genomes]
rs36111470	0.92[ASN][1000 genomes]
rs4314213	0.88[EUR][1000 genomes]
rs4318588	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4333119	0.81[ASN][1000 genomes]
rs4682806	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4682809	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682810	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683168	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4683175	0.90[ASN][1000 genomes]
rs4683178	0.90[ASN][1000 genomes]
rs56307311	0.92[ASN][1000 genomes]
rs59521415	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61079448	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6441944	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6764042	0.81[EUR][1000 genomes]
rs6776028	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6784214	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794103	0.90[ASN][1000 genomes]
rs6794475	0.90[ASN][1000 genomes]
rs6795629	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6800484	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6805094	0.81[EUR][1000 genomes]
rs6809381	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7610518	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7616464	0.81[ASN][1000 genomes]
rs7631598	0.82[ASN][1000 genomes]
rs7642701	0.81[ASN][1000 genomes]
rs9311386	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9311387	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9637425	0.89[ASN][1000 genomes]
rs9824886	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9849015	0.80[EUR][1000 genomes]
rs9870445	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9876587	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9990063	0.83[EUR][1000 genomes];0.97[ASN][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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46146800-46164400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:46148400-46160200	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr3:46149200-46158800	Enhancers	NHLF	lung
4	chr3:46149200-46159800	Enhancers	Placenta	Placenta
5	chr3:46150000-46157600	Enhancers	HMEC	breast
6	chr3:46150400-46158800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:46150600-46158600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:46151000-46155800	Weak transcription	Liver	Liver
9	chr3:46151000-46158800	Weak transcription	Stomach Mucosa	stomach
10	chr3:46151200-46156400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr3:46151400-46156000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr3:46151800-46158200	Enhancers	NHDF-Ad	bronchial
13	chr3:46152000-46157400	Enhancers	NHEK	skin
14	chr3:46152600-46156200	Enhancers	Primary neutrophils fromperipheralblood	blood
15	chr3:46152600-46157000	Weak transcription	Fetal Stomach	stomach
16	chr3:46152600-46165200	Weak transcription	Spleen	Spleen
17	chr3:46152800-46155400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr3:46152800-46155600	Weak transcription	NH-A	brain
19	chr3:46152800-46158800	Enhancers	Hela-S3	cervix
20	chr3:46152800-46159400	Weak transcription	Lung	lung
21	chr3:46152800-46162400	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr3:46153000-46155200	Weak transcription	Adipose Nuclei	Adipose
23	chr3:46153000-46155200	Weak transcription	Osteobl	bone
24	chr3:46153000-46155800	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr3:46153000-46156600	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr3:46153000-46157800	Weak transcription	Fetal Lung	lung
27	chr3:46153200-46155000	ZNF genes & repeats	GM12878-XiMat	blood
28	chr3:46153600-46156200	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr3:46153800-46155800	Weak transcription	Primary B cells from cord blood	blood
30	chr3:46154000-46155000	Enhancers	HSMMtube	muscle
31	chr3:46154000-46156800	Enhancers	HSMM	muscle
32	chr3:46154200-46155800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr3:46154400-46155800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr3:46154400-46156800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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