Variant report

Variant	rs4895576
Chromosome Location	chr6:140206760-140206761
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1028472	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10484811	0.95[YRI][hapmap]
rs11751210	1.00[JPT][hapmap]
rs11756192	1.00[JPT][hapmap]
rs11758188	1.00[JPT][hapmap]
rs17069431	0.85[YRI][hapmap]
rs17069446	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069449	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069457	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069468	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069471	0.95[YRI][hapmap]
rs17069477	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17069489	0.95[YRI][hapmap]
rs17516817	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs17755520	1.00[JPT][hapmap]
rs17811871	1.00[JPT][hapmap]
rs17812617	1.00[JPT][hapmap]
rs17812647	1.00[JPT][hapmap]
rs1890428	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1963700	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2144168	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs477737	1.00[JPT][hapmap]
rs4895575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4895577	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4895580	1.00[JPT][hapmap]
rs4896497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4896498	1.00[ASN][1000 genomes]
rs4896499	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4896500	1.00[ASN][1000 genomes]
rs4896502	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs56690523	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60716022	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs656363	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs6570385	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570386	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908754	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6913694	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6921596	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921645	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73563232	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73563265	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73563279	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv1017015	chr6:140084137-140300565	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1019407	chr6:140087307-140304334	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140202000-140209000	Enhancers	iPS-20b Cell Line	embryonic stem cell
2	chr6:140202000-140209600	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr6:140202400-140211800	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr6:140203000-140207400	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr6:140203200-140207000	Enhancers	Primary B cells from cord blood	blood
6	chr6:140203200-140209000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:140203400-140207000	Weak transcription	Spleen	Spleen
8	chr6:140203400-140212600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:140203600-140209400	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr6:140203600-140211000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:140203800-140209800	Weak transcription	Left Ventricle	heart
12	chr6:140204200-140207600	Enhancers	Primary neutrophils fromperipheralblood	blood
13	chr6:140204400-140209400	Weak transcription	Fetal Lung	lung
14	chr6:140204600-140206800	Weak transcription	Fetal Intestine Large	intestine
15	chr6:140204600-140209200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr6:140204600-140209800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr6:140204600-140209800	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr6:140204600-140210000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:140204600-140213200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:140204800-140207000	Weak transcription	Fetal Intestine Small	intestine
21	chr6:140204800-140209800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr6:140204800-140209800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr6:140204800-140209800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr6:140204800-140209800	Weak transcription	Fetal Kidney	kidney
25	chr6:140204800-140209800	Weak transcription	Fetal Muscle Leg	muscle
26	chr6:140204800-140209800	Weak transcription	Placenta	Placenta
27	chr6:140204800-140209800	Weak transcription	Fetal Stomach	stomach
28	chr6:140204800-140209800	Weak transcription	Ovary	ovary
29	chr6:140204800-140209800	Weak transcription	Stomach Smooth Muscle	stomach
30	chr6:140204800-140210200	Weak transcription	K562	blood
31	chr6:140205000-140208200	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr6:140205000-140209800	Weak transcription	Rectal Smooth Muscle	rectum
33	chr6:140205000-140209800	Weak transcription	HSMMtube	muscle
34	chr6:140205000-140210000	Weak transcription	Brain Anterior Caudate	brain
35	chr6:140205200-140209600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr6:140205200-140209800	Weak transcription	Brain Substantia Nigra	brain
37	chr6:140205200-140209800	Weak transcription	NH-A	brain
38	chr6:140205200-140210000	Weak transcription	Brain Hippocampus Middle	brain
39	chr6:140205400-140209400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr6:140205400-140209800	Weak transcription	Osteobl	bone
41	chr6:140205600-140206800	Enhancers	Monocytes-CD14+_RO01746	blood
42	chr6:140205600-140209000	Weak transcription	Fetal Heart	heart
43	chr6:140205600-140209600	Weak transcription	HSMM	muscle
44	chr6:140205800-140209200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr6:140205800-140209400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
46	chr6:140206000-140207000	Weak transcription	H1 Cell Line	embryonic stem cell
47	chr6:140206000-140208000	Weak transcription	Right Atrium	heart
48	chr6:140206000-140209000	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr6:140206000-140209600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr6:140206000-140209600	Weak transcription	NHLF	lung

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