Variant report

Variant	rs4342388
Chromosome Location	chr6:74450885-74450886
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10498895	0.92[CEU][hapmap];0.83[AMR][1000 genomes]
rs10805974	0.92[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10943129	0.83[AMR][1000 genomes]
rs12662725	0.92[CEU][hapmap]
rs1392913	0.96[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17760906	0.92[CEU][hapmap]
rs1973480	0.84[CEU][hapmap]
rs2033736	0.92[CEU][hapmap];0.85[AMR][1000 genomes]
rs2047670	0.85[AMR][1000 genomes]
rs2118330	0.80[EUR][1000 genomes]
rs2118331	0.85[AMR][1000 genomes]
rs2118332	0.85[AMR][1000 genomes]
rs2164755	0.92[CEU][hapmap];0.86[AMR][1000 genomes]
rs2351311	0.90[YRI][hapmap];0.92[AFR][1000 genomes]
rs2351527	0.82[AMR][1000 genomes]
rs2351528	0.92[CEU][hapmap];0.83[AMR][1000 genomes]
rs4706555	0.83[AMR][1000 genomes]
rs4708081	0.82[ASN][1000 genomes]
rs4708082	0.92[CEU][hapmap]
rs4708088	0.89[CEU][hapmap]
rs5023688	0.92[CEU][hapmap];0.83[AMR][1000 genomes]
rs6453698	0.85[AMR][1000 genomes]
rs6453699	0.84[AMR][1000 genomes]
rs6453700	0.92[CEU][hapmap];0.83[AMR][1000 genomes]
rs6917630	0.80[AMR][1000 genomes]
rs6918612	0.92[CEU][hapmap];0.85[AMR][1000 genomes]
rs6921996	0.92[CEU][hapmap];0.83[AMR][1000 genomes]
rs6922211	0.83[AMR][1000 genomes]
rs6932012	0.92[CEU][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes]
rs7738437	0.85[AMR][1000 genomes]
rs7742435	0.85[AMR][1000 genomes]
rs7762433	0.85[AMR][1000 genomes]
rs7763367	0.85[AMR][1000 genomes]
rs7771585	0.92[CEU][hapmap];0.85[AMR][1000 genomes]
rs7776411	0.85[AMR][1000 genomes]
rs9293940	0.85[AMR][1000 genomes]
rs9293941	0.92[CEU][hapmap];0.85[AMR][1000 genomes]
rs9442954	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9442955	1.00[CEU][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9442960	0.92[CEU][hapmap];0.85[AMR][1000 genomes]
rs9442961	0.92[CEU][hapmap];0.85[AMR][1000 genomes]
rs9442963	0.83[AMR][1000 genomes]
rs9447014	0.85[AMR][1000 genomes]
rs9447015	0.85[AMR][1000 genomes]
rs9447016	0.85[AMR][1000 genomes]
rs9447017	0.92[CEU][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes]
rs9447019	0.92[CEU][hapmap];0.85[AMR][1000 genomes]
rs9447029	0.96[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027968	chr6:74155378-74521923	Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
2	nsv538305	chr6:74155378-74521923	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
3	nsv1023250	chr6:74189642-74605976	Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases
4	nsv538306	chr6:74189642-74605976	Strong transcription Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases
5	nsv463154	chr6:74412048-74775904	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv603695	chr6:74412048-74775904	Flanking Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:74414800-74474600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr6:74425200-74475800	Weak transcription	Hela-S3	cervix
3	chr6:74425400-74483200	Weak transcription	A549	lung
4	chr6:74430600-74455400	Weak transcription	Right Ventricle	heart
5	chr6:74433000-74456400	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr6:74433000-74456400	Weak transcription	HSMM	muscle
7	chr6:74433400-74456400	Weak transcription	NHLF	lung
8	chr6:74433600-74455000	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr6:74435600-74454600	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr6:74435800-74475400	Weak transcription	Primary T cells from cord blood	blood
11	chr6:74438400-74527200	Weak transcription	Esophagus	oesophagus
12	chr6:74439600-74451200	Strong transcription	HMEC	breast
13	chr6:74440200-74451000	Strong transcription	Primary hematopoietic stem cells	blood
14	chr6:74441400-74473200	Weak transcription	HUVEC	blood vessel
15	chr6:74441400-74544400	Weak transcription	Aorta	Aorta
16	chr6:74442200-74455800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr6:74442200-74473400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr6:74442400-74493400	Weak transcription	Fetal Muscle Trunk	muscle
19	chr6:74443000-74451400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:74443400-74484000	Weak transcription	Left Ventricle	heart
21	chr6:74444000-74498600	Weak transcription	Fetal Muscle Leg	muscle
22	chr6:74444400-74455200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr6:74444400-74474600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr6:74445000-74452800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:74445200-74452800	Weak transcription	Rectal Smooth Muscle	rectum
26	chr6:74445400-74456200	Weak transcription	Osteobl	bone
27	chr6:74445600-74453000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:74446600-74455400	Weak transcription	Fetal Lung	lung
29	chr6:74446800-74454400	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr6:74447200-74456000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr6:74448400-74455800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr6:74448600-74454400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr6:74448800-74453400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr6:74448800-74455800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr6:74448800-74456400	Weak transcription	Adipose Nuclei	Adipose
36	chr6:74448800-74483400	Weak transcription	NHEK	skin
37	chr6:74449400-74452200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr6:74449800-74451200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr6:74450000-74452200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr6:74450600-74453800	Strong transcription	NHDF-Ad	bronchial
41	chr6:74450800-74452200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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