Variant report

Variant	rs6787106
Chromosome Location	chr3:56759800-56759801
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCDC66-1	chr3:56758474-56759951	NONHSAT090061

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1009118	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1009119	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11919114	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11919130	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11919184	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13061142	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095559	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13319627	0.95[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1489948	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1844474	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1844475	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28651361	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34360725	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34924415	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3732511	0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3821414	0.92[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3901349	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3924228	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs41276471	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4574264	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55651418	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55849986	0.96[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs56031438	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs56152533	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6445822	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6445823	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs6765444	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767897	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6770654	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6773569	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6776368	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6776992	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6777946	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6778753	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6778984	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6778985	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6780940	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6781979	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6781995	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6783263	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6792623	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6793398	0.87[ASN][1000 genomes]
rs6794215	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6804621	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6805864	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6808707	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6978	0.93[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.95[TSI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7427683	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7427684	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7431479	0.88[JPT][hapmap];0.87[AFR][1000 genomes]
rs7617179	0.91[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7627227	0.91[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7650042	0.91[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs9311618	0.95[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9311619	0.95[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs957849	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9754631	0.90[ASN][1000 genomes]
rs9755927	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9757026	0.90[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9810507	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9816311	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9826255	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9826362	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9826563	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9835767	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9845925	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9855217	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9864273	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9864804	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9865146	0.98[ASN][1000 genomes]
rs9866237	0.98[ASN][1000 genomes]
rs9882705	0.89[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9883232	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56753400-56766200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:56753600-56763000	Weak transcription	Brain Substantia Nigra	brain
3	chr3:56753800-56760800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:56754200-56762200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr3:56754400-56762400	Weak transcription	Brain Germinal Matrix	brain
6	chr3:56754400-56783200	Weak transcription	Stomach Mucosa	stomach
7	chr3:56754800-56760600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr3:56755000-56762200	Weak transcription	Colon Smooth Muscle	Colon
9	chr3:56755200-56760800	Weak transcription	HepG2	liver
10	chr3:56755200-56781800	Weak transcription	NH-A	brain
11	chr3:56755600-56760400	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr3:56755600-56762400	Weak transcription	Rectal Smooth Muscle	rectum
13	chr3:56755800-56760600	Weak transcription	Placenta	Placenta
14	chr3:56755800-56761000	Weak transcription	Ovary	ovary
15	chr3:56755800-56762200	Weak transcription	Pancreas	Pancrea
16	chr3:56755800-56763000	Weak transcription	Psoas Muscle	Psoas
17	chr3:56756000-56762200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr3:56756200-56762400	Weak transcription	Stomach Smooth Muscle	stomach
19	chr3:56756400-56762400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:56756400-56767200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr3:56756600-56766200	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr3:56756800-56781000	Weak transcription	Fetal Intestine Large	intestine
23	chr3:56757000-56786400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr3:56757200-56760400	Weak transcription	Brain Cingulate Gyrus	brain
25	chr3:56757200-56762600	Weak transcription	Esophagus	oesophagus
26	chr3:56757200-56767200	Strong transcription	Fetal Muscle Trunk	muscle
27	chr3:56757200-56767400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr3:56757400-56760400	Weak transcription	Primary B cells from cord blood	blood
29	chr3:56757400-56761400	Weak transcription	HUVEC	blood vessel
30	chr3:56757600-56761400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr3:56757600-56792200	Weak transcription	Hela-S3	cervix
32	chr3:56758000-56760600	Weak transcription	NHEK	skin
33	chr3:56758000-56762400	Weak transcription	HSMMtube	muscle
34	chr3:56758000-56768600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr3:56758000-56768800	Weak transcription	NHDF-Ad	bronchial
36	chr3:56758400-56762600	Genic enhancers	Primary T cells fromperipheralblood	blood
37	chr3:56758600-56760400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr3:56758600-56760800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
39	chr3:56758600-56761200	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr3:56758600-56761200	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
41	chr3:56758600-56762400	Genic enhancers	Primary T helper cells fromperipheralblood	blood
42	chr3:56758600-56762600	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
43	chr3:56758600-56764200	Strong transcription	HMEC	breast
44	chr3:56758600-56766800	Strong transcription	HSMM	muscle
45	chr3:56758600-56767000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr3:56758600-56767000	Strong transcription	Lung	lung
47	chr3:56758600-56792200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr3:56758800-56759800	Transcr. at gene 5' and 3'	Primary T cells from cord blood	blood
49	chr3:56758800-56760000	Flanking Active TSS	GM12878-XiMat	blood
50	chr3:56758800-56760800	Genic enhancers	Primary B cells from peripheral blood	blood

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