Variant report

Variant	rs2743862
Chromosome Location	chr6:15644729-15644730
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	chr6:15642319..15645214-chr6:15647219..15649863,3	K562	blood:
2	chr6:15642319..15645214-chr6:15647219..15649442,2	K562	blood:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11752196	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs11755055	0.82[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs1474605	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2005976	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2252470	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619521	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2619522	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2619524	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2619525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2619528	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619545	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2619546	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2619547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2619549	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2619550	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2743550	0.82[CHB][hapmap];0.88[JPT][hapmap];0.82[YRI][hapmap]
rs2743854	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs2743856	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2743857	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743861	0.82[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap]
rs2743863	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743865	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs2743866	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs2743867	0.82[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs2743869	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs6914388	0.82[MEX][hapmap]
rs734129	0.82[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs760761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs875463	0.82[CHD][hapmap];1.00[JPT][hapmap]
rs9296984	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs9296985	0.82[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs9464803	1.00[JPT][hapmap]
rs9464805	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs9476837	1.00[JPT][hapmap];0.82[YRI][hapmap]
rs9476838	1.00[JPT][hapmap];0.81[YRI][hapmap]
rs9476844	1.00[JPT][hapmap]
rs9476845	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs9476858	0.82[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs9476859	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs9476863	1.00[JPT][hapmap];0.81[YRI][hapmap]

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	nsv428136	chr6:15595640-15781241	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2755670	chr6:15624762-15736008	Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15600000-15660400	Weak transcription	Hela-S3	cervix
2	chr6:15615000-15652600	Weak transcription	Colonic Mucosa	Colon
3	chr6:15615200-15662200	Weak transcription	Gastric	stomach
4	chr6:15616800-15662000	Weak transcription	Placenta	Placenta
5	chr6:15616800-15662200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:15621800-15662200	Weak transcription	Pancreas	Pancrea
7	chr6:15622200-15649200	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr6:15623800-15662000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:15628600-15662000	Weak transcription	NHLF	lung
10	chr6:15629400-15649200	Weak transcription	HSMM	muscle
11	chr6:15629400-15650400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:15629600-15654000	Weak transcription	Osteobl	bone
13	chr6:15629600-15657000	Weak transcription	K562	blood
14	chr6:15629600-15661800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr6:15632200-15662000	Weak transcription	Duodenum Mucosa	Duodenum
16	chr6:15634400-15657600	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr6:15634600-15657600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr6:15637200-15662000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr6:15638200-15662000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:15638800-15649800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:15639400-15648400	Weak transcription	Rectal Smooth Muscle	rectum
22	chr6:15639400-15662200	Weak transcription	Left Ventricle	heart
23	chr6:15640600-15646200	ZNF genes & repeats	Primary B cells from cord blood	blood
24	chr6:15640800-15646200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
25	chr6:15641000-15649600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr6:15641000-15651600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:15641800-15646400	ZNF genes & repeats	Dnd41	blood
28	chr6:15642000-15662000	Weak transcription	Brain Angular Gyrus	brain
29	chr6:15642200-15662200	Weak transcription	Aorta	Aorta
30	chr6:15642400-15661400	Weak transcription	Spleen	Spleen
31	chr6:15642600-15662200	Weak transcription	Esophagus	oesophagus
32	chr6:15642800-15645400	ZNF genes & repeats	Primary B cells from peripheral blood	blood
33	chr6:15642800-15648400	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr6:15642800-15650400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr6:15642800-15662000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr6:15642800-15662000	Weak transcription	Lung	lung
37	chr6:15642800-15662000	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr6:15643000-15658600	Weak transcription	Fetal Thymus	thymus
39	chr6:15643000-15662000	Weak transcription	Fetal Stomach	stomach
40	chr6:15643200-15644800	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
41	chr6:15643600-15644800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr6:15643600-15644800	ZNF genes & repeats	HepG2	liver
43	chr6:15643600-15645000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
44	chr6:15643800-15649400	Weak transcription	Primary monocytes fromperipheralblood	blood
45	chr6:15644000-15644800	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
46	chr6:15644200-15647200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:15644400-15649200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr6:15644400-15658600	Weak transcription	Psoas Muscle	Psoas
49	chr6:15644400-15661800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr6:15644400-15662000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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