Variant report

Variant	rs17069457
Chromosome Location	chr6:140207682-140207683
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

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]
rs17069446	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]
rs17069468	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17069477	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17516817	0.86[ASN][1000 genomes]
rs1890428	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	0.95[ASN][1000 genomes]
rs4895575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4895576	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]
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]
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]
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	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:56 , 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	chr6:140203200-140209000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:140203400-140212600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:140203600-140209400	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr6:140203600-140211000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:140203800-140209800	Weak transcription	Left Ventricle	heart
9	chr6:140204400-140209400	Weak transcription	Fetal Lung	lung
10	chr6:140204600-140209200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr6:140204600-140209800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr6:140204600-140209800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr6:140204600-140210000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:140204600-140213200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr6:140204800-140209800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr6:140204800-140209800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:140204800-140209800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr6:140204800-140209800	Weak transcription	Fetal Kidney	kidney
19	chr6:140204800-140209800	Weak transcription	Fetal Muscle Leg	muscle
20	chr6:140204800-140209800	Weak transcription	Placenta	Placenta
21	chr6:140204800-140209800	Weak transcription	Fetal Stomach	stomach
22	chr6:140204800-140209800	Weak transcription	Ovary	ovary
23	chr6:140204800-140209800	Weak transcription	Stomach Smooth Muscle	stomach
24	chr6:140204800-140210200	Weak transcription	K562	blood
25	chr6:140205000-140208200	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr6:140205000-140209800	Weak transcription	Rectal Smooth Muscle	rectum
27	chr6:140205000-140209800	Weak transcription	HSMMtube	muscle
28	chr6:140205000-140210000	Weak transcription	Brain Anterior Caudate	brain
29	chr6:140205200-140209600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr6:140205200-140209800	Weak transcription	Brain Substantia Nigra	brain
31	chr6:140205200-140209800	Weak transcription	NH-A	brain
32	chr6:140205200-140210000	Weak transcription	Brain Hippocampus Middle	brain
33	chr6:140205400-140209400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr6:140205400-140209800	Weak transcription	Osteobl	bone
35	chr6:140205600-140209000	Weak transcription	Fetal Heart	heart
36	chr6:140205600-140209600	Weak transcription	HSMM	muscle
37	chr6:140205800-140209200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr6:140205800-140209400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr6:140206000-140208000	Weak transcription	Right Atrium	heart
40	chr6:140206000-140209000	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr6:140206000-140209600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:140206000-140209600	Weak transcription	NHLF	lung
43	chr6:140206000-140209800	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr6:140206000-140209800	Weak transcription	NHDF-Ad	bronchial
45	chr6:140206200-140208200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr6:140206200-140208200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:140206200-140209800	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr6:140206800-140208000	Enhancers	ES-I3 Cell Line	embryonic stem cell
49	chr6:140206800-140208800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr6:140206800-140209600	Enhancers	HUES6 Cell Line	embryonic stem cell

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