Variant report

Variant	rs56031438
Chromosome Location	chr3:56766979-56766980
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs1009118	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1009119	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11919114	0.98[ASN][1000 genomes]
rs11919130	0.98[ASN][1000 genomes]
rs11919184	0.86[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs12233433	0.83[AMR][1000 genomes]
rs13061142	0.98[ASN][1000 genomes]
rs13095559	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13319627	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1489948	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1844474	0.84[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs1844475	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs28651361	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34360725	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs34924415	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3732511	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3821414	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3901349	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3924228	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs41276471	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4521191	0.89[AMR][1000 genomes]
rs4574264	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs55651418	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55849986	0.89[AFR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56097266	0.89[AMR][1000 genomes]
rs56152533	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6445822	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6445823	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6765444	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6767897	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6770654	0.95[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6773569	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6776368	0.95[ASN][1000 genomes]
rs6776992	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6777946	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6778753	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6778984	0.94[ASN][1000 genomes]
rs6778985	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs6780940	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6781979	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6781995	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6783263	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6787106	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6792623	0.85[ASN][1000 genomes]
rs6793398	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6794215	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6804621	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6805864	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6808707	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6978	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7427683	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7427684	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7431479	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs7617179	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7627227	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7650042	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9311618	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9311619	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs957849	0.98[ASN][1000 genomes]
rs9754631	0.89[ASN][1000 genomes]
rs9755927	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9757026	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9810507	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9810658	0.86[AMR][1000 genomes]
rs9816311	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9826255	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9826362	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9826563	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9835767	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9845925	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9855217	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9864273	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9864804	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9865146	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9866237	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882705	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9883232	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3440152	chr3:56764403-56773941	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56754400-56783200	Weak transcription	Stomach Mucosa	stomach
2	chr3:56755200-56781800	Weak transcription	NH-A	brain
3	chr3:56756400-56767200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr3:56756800-56781000	Weak transcription	Fetal Intestine Large	intestine
5	chr3:56757000-56786400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr3:56757200-56767200	Strong transcription	Fetal Muscle Trunk	muscle
7	chr3:56757200-56767400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr3:56757600-56792200	Weak transcription	Hela-S3	cervix
9	chr3:56758000-56768600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:56758000-56768800	Weak transcription	NHDF-Ad	bronchial
11	chr3:56758600-56767000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr3:56758600-56767000	Strong transcription	Lung	lung
13	chr3:56758600-56792200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:56758800-56767000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr3:56758800-56767000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:56758800-56767400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr3:56758800-56770800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:56758800-56782800	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr3:56759000-56774400	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr3:56759400-56784000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr3:56759600-56773200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr3:56759800-56767200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
23	chr3:56759800-56779000	Weak transcription	Liver	Liver
24	chr3:56759800-56790400	Strong transcription	Dnd41	blood
25	chr3:56760000-56767000	Strong transcription	Primary hematopoietic stem cells	blood
26	chr3:56760000-56768600	Strong transcription	Thymus	Thymus
27	chr3:56760400-56773200	Strong transcription	Primary B cells from cord blood	blood
28	chr3:56760600-56768000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr3:56760600-56769400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr3:56760800-56767000	Strong transcription	HepG2	liver
31	chr3:56760800-56773200	Strong transcription	Primary B cells from peripheral blood	blood
32	chr3:56760800-56783000	Weak transcription	Osteobl	bone
33	chr3:56760800-56788800	Strong transcription	Fetal Thymus	thymus
34	chr3:56761200-56767400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr3:56761600-56767000	Strong transcription	GM12878-XiMat	blood
36	chr3:56762000-56767200	Strong transcription	Fetal Stomach	stomach
37	chr3:56762000-56788400	Weak transcription	Colonic Mucosa	Colon
38	chr3:56762200-56768800	Strong transcription	Primary T cells from cord blood	blood
39	chr3:56762400-56768200	Strong transcription	Primary T helper cells fromperipheralblood	blood
40	chr3:56763000-56768400	Strong transcription	Brain Cingulate Gyrus	brain
41	chr3:56763200-56767000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr3:56763600-56781000	Weak transcription	Fetal Brain Male	brain
43	chr3:56763600-56784200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr3:56763800-56771000	Weak transcription	Fetal Lung	lung
45	chr3:56763800-56789000	Weak transcription	Small Intestine	intestine
46	chr3:56763800-56790200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr3:56763800-56792800	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr3:56764000-56770200	Weak transcription	Brain Germinal Matrix	brain
49	chr3:56764000-56770800	Weak transcription	Ovary	ovary
50	chr3:56764000-56770800	Weak transcription	Right Ventricle	heart

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