Variant report

Variant	rs9829054
Chromosome Location	chr3:179151389-179151390
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:179144339..179147910-chr3:179151090..179156565,5	K562	blood:
2	chr3:179142328..179144136-chr3:179149284..179151503,2	K562	blood:
3	chr3:179149608..179153892-chr3:179154339..179158614,4	K562	blood:

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs11916825	0.89[AMR][1000 genomes]
rs11919840	0.89[AMR][1000 genomes]
rs11925064	0.89[AMR][1000 genomes]
rs11925248	0.89[AMR][1000 genomes]
rs11927084	0.89[AMR][1000 genomes]
rs13317510	1.00[AMR][1000 genomes]
rs13320472	0.81[AMR][1000 genomes]
rs16830445	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16830460	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28512433	1.00[AMR][1000 genomes]
rs28522651	0.89[AMR][1000 genomes]
rs55805052	0.89[AMR][1000 genomes]
rs56265474	1.00[AMR][1000 genomes]
rs56280435	0.89[AMR][1000 genomes]
rs57148977	0.89[AMR][1000 genomes]
rs57526364	0.89[AMR][1000 genomes]
rs57795346	0.89[AMR][1000 genomes]
rs58741861	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59062224	0.89[AMR][1000 genomes]
rs59333548	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59511701	0.89[AMR][1000 genomes]
rs59564372	0.89[AMR][1000 genomes]
rs60191176	0.89[AMR][1000 genomes]
rs60746059	0.89[AMR][1000 genomes]
rs61246771	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61325843	0.89[AMR][1000 genomes]
rs6778235	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6800044	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6808033	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6808866	0.89[AMR][1000 genomes]
rs73043406	0.89[AMR][1000 genomes]
rs73043407	0.89[AMR][1000 genomes]
rs73043413	0.89[AMR][1000 genomes]
rs73045191	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73045195	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73045198	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73059758	0.89[AMR][1000 genomes]
rs73059766	0.89[AMR][1000 genomes]
rs7355835	1.00[AMR][1000 genomes]
rs73883508	1.00[AMR][1000 genomes]
rs73883509	1.00[AMR][1000 genomes]
rs73886620	0.89[AMR][1000 genomes]
rs7611533	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7618506	0.89[AFR][1000 genomes]
rs7625719	0.89[AMR][1000 genomes]
rs9814990	1.00[AMR][1000 genomes]
rs9815687	0.90[AMR][1000 genomes]
rs9834493	1.00[AMR][1000 genomes]
rs9861354	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9864857	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9872939	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9884070	1.00[AMR][1000 genomes]
rs9968068	0.89[AMR][1000 genomes]
rs9968069	0.89[AMR][1000 genomes]
rs9968075	0.89[AMR][1000 genomes]
rs9968076	0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998253	chr3:178622707-179196274	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv536814	chr3:178622707-179196274	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv3354111	chr3:178833305-179156908	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv1002962	chr3:178943753-179224548	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
5	nsv536815	chr3:178943753-179224548	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv1003021	chr3:178944806-179246179	Enhancers Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	nsv1006584	chr3:178944822-179241429	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
8	nsv829806	chr3:178952363-179154373	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv471116	chr3:178968634-179252263	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
10	nsv592650	chr3:178968634-179252263	Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
11	nsv1010513	chr3:178976107-179196274	Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
12	nsv536816	chr3:178976107-179196274	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
13	nsv1003514	chr3:178990037-179177029	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179084000-179167200	Weak transcription	Fetal Brain Male	brain
2	chr3:179112000-179167200	Weak transcription	Fetal Kidney	kidney
3	chr3:179123200-179154800	Weak transcription	Brain Anterior Caudate	brain
4	chr3:179123600-179153600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:179123800-179156400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:179132800-179167000	Weak transcription	Hela-S3	cervix
7	chr3:179137400-179156400	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:179139800-179153200	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:179142200-179156400	Weak transcription	K562	blood
10	chr3:179143000-179163800	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr3:179143200-179166800	Weak transcription	HSMM	muscle
12	chr3:179143200-179167000	Weak transcription	HSMMtube	muscle
13	chr3:179143200-179167200	Weak transcription	Fetal Brain Female	brain
14	chr3:179143200-179168200	Weak transcription	Esophagus	oesophagus
15	chr3:179143400-179152400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr3:179143400-179165600	Weak transcription	Fetal Intestine Small	intestine
17	chr3:179143400-179167000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr3:179143600-179156800	Weak transcription	Fetal Stomach	stomach
19	chr3:179143600-179166800	Weak transcription	Brain Germinal Matrix	brain
20	chr3:179143800-179167000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr3:179144000-179156400	Weak transcription	Fetal Muscle Trunk	muscle
22	chr3:179144200-179156400	Weak transcription	Dnd41	blood
23	chr3:179145200-179154800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr3:179148000-179164400	Weak transcription	Fetal Heart	heart
25	chr3:179148200-179152200	Weak transcription	Spleen	Spleen
26	chr3:179148400-179153600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr3:179148400-179160000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr3:179148400-179162200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr3:179148800-179152000	Enhancers	Primary B cells from peripheral blood	blood
30	chr3:179148800-179152600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr3:179149000-179152000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr3:179149000-179152000	Enhancers	Primary hematopoietic stem cells	blood
33	chr3:179149000-179154800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr3:179149200-179152000	Enhancers	Primary hematopoietic stem cells short term culture	blood
35	chr3:179149200-179152200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr3:179149400-179151400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr3:179149400-179151400	Enhancers	Colon Smooth Muscle	Colon
38	chr3:179149400-179152000	Enhancers	Brain Hippocampus Middle	brain
39	chr3:179149400-179152400	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr3:179149400-179152400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr3:179149600-179152000	Enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr3:179150000-179152200	Weak transcription	Right Atrium	heart
43	chr3:179150000-179152400	Enhancers	Primary neutrophils fromperipheralblood	blood
44	chr3:179150000-179153200	Weak transcription	Brain Angular Gyrus	brain
45	chr3:179150000-179156400	Weak transcription	Thymus	Thymus
46	chr3:179150000-179162400	Weak transcription	Aorta	Aorta
47	chr3:179150000-179164000	Weak transcription	Rectal Smooth Muscle	rectum
48	chr3:179150200-179151400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr3:179150200-179151400	Enhancers	Primary monocytes fromperipheralblood	blood
50	chr3:179150200-179151600	Enhancers	NHDF-Ad	bronchial

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