Variant report

Variant	rs7773849
Chromosome Location	chr6:128553518-128553519
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10485160	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs11961542	0.95[ASN][1000 genomes]
rs11962214	1.00[CEU][hapmap]
rs12055654	0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12055776	0.81[ASN][1000 genomes]
rs1339188	1.00[CEU][hapmap]
rs1538498	1.00[CEU][hapmap]
rs1543376	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17055441	0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs17055450	1.00[CEU][hapmap]
rs17055452	1.00[CEU][hapmap]
rs17055472	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.83[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs17055477	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs17055628	1.00[CEU][hapmap]
rs17055630	1.00[CEU][hapmap]
rs17055679	1.00[CEU][hapmap]
rs1738283	1.00[CEU][hapmap]
rs1738288	1.00[CEU][hapmap]
rs1738290	1.00[CEU][hapmap]
rs1768347	1.00[CEU][hapmap]
rs1768353	1.00[CEU][hapmap]
rs1768357	1.00[CEU][hapmap]
rs2073161	0.89[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs2076572	0.82[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs3813371	0.84[JPT][hapmap];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3813372	0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs3813373	0.84[JPT][hapmap];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4140541	0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4243494	0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs4421217	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4440487	1.00[CEU][hapmap]
rs4483000	0.89[CHB][hapmap];0.84[JPT][hapmap];0.80[ASN][1000 genomes]
rs4897252	0.83[CHB][hapmap];0.84[JPT][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61422755	0.80[ASN][1000 genomes]
rs61583694	0.84[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs6913718	1.00[CEU][hapmap]
rs6928143	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6933029	0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs6938118	0.84[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs730202	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs73590673	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs742736	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7753945	0.84[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7754321	1.00[CEU][hapmap]
rs7755473	0.90[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs7755836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7772941	1.00[CEU][hapmap]
rs7776405	1.00[CEU][hapmap]
rs9321113	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9372885	0.86[EUR][1000 genomes]
rs9372886	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9372887	0.89[CHB][hapmap];0.84[JPT][hapmap]
rs9375550	0.84[JPT][hapmap];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9375551	0.87[ASN][1000 genomes]
rs9375552	0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs9375554	0.88[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs9375555	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9375556	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9375557	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9375558	0.85[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9385452	0.89[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs9385454	0.80[ASN][1000 genomes]
rs9385455	0.84[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9388618	0.85[ASN][1000 genomes]
rs9388619	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9388621	0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs9388622	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs9388624	0.89[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs9388625	0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9388626	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9388627	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9398866	0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs9398867	0.89[CHB][hapmap];0.84[JPT][hapmap]
rs9398868	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9402023	0.84[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs9402024	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9402025	0.89[CHB][hapmap];0.81[ASN][1000 genomes]
rs9402027	0.90[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs9402028	0.81[ASN][1000 genomes]
rs9402029	0.83[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9402030	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9402031	0.82[CHB][hapmap];0.80[JPT][hapmap];0.80[ASN][1000 genomes]
rs9402032	0.89[CHB][hapmap];0.95[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9784773	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9784880	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs981998	1.00[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	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv886651	chr6:128450019-128565778	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv886653	chr6:128455539-128555805	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv886654	chr6:128471938-128555805	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128488200-128565200	Weak transcription	Fetal Stomach	stomach
2	chr6:128492600-128567800	Weak transcription	Ovary	ovary
3	chr6:128506000-128561000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr6:128520400-128573800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:128522000-128560800	Weak transcription	Primary T cells from cord blood	blood
6	chr6:128527600-128561000	Weak transcription	Esophagus	oesophagus
7	chr6:128528200-128558400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:128528400-128561000	Weak transcription	Fetal Brain Male	brain
9	chr6:128529800-128561000	Weak transcription	Stomach Smooth Muscle	stomach
10	chr6:128531000-128562400	Weak transcription	Aorta	Aorta
11	chr6:128531200-128554600	Weak transcription	Right Ventricle	heart
12	chr6:128531200-128562400	Weak transcription	HSMMtube	muscle
13	chr6:128531200-128567800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:128531200-128573800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:128531400-128553600	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr6:128532000-128554400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:128532000-128561000	Weak transcription	Osteobl	bone
18	chr6:128536000-128554800	Weak transcription	Brain Substantia Nigra	brain
19	chr6:128536800-128560600	Weak transcription	Fetal Lung	lung
20	chr6:128537200-128561000	Weak transcription	Fetal Muscle Leg	muscle
21	chr6:128537600-128573800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:128539800-128558200	Weak transcription	NH-A	brain
23	chr6:128540200-128556600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:128540200-128559600	Weak transcription	Primary B cells from peripheral blood	blood
25	chr6:128540200-128561000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:128540200-128564800	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr6:128540400-128554400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:128540400-128560400	Weak transcription	Fetal Thymus	thymus
29	chr6:128540400-128560400	Weak transcription	HUVEC	blood vessel
30	chr6:128540400-128569400	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr6:128540600-128561000	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr6:128540800-128562400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr6:128544000-128556600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr6:128544200-128562400	Weak transcription	Gastric	stomach
35	chr6:128544200-128563200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr6:128548400-128554400	Weak transcription	HMEC	breast
37	chr6:128548400-128558400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr6:128548600-128554400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr6:128548600-128554400	Weak transcription	NHEK	skin
40	chr6:128551200-128557400	Strong transcription	Primary B cells from cord blood	blood
41	chr6:128551400-128554400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr6:128551400-128558400	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr6:128551400-128561000	Weak transcription	Right Atrium	heart
44	chr6:128551400-128565800	Weak transcription	Psoas Muscle	Psoas
45	chr6:128551400-128584400	Weak transcription	Pancreas	Pancrea
46	chr6:128551600-128558400	Weak transcription	Brain Anterior Caudate	brain
47	chr6:128552000-128553600	Weak transcription	HSMM	muscle
48	chr6:128552200-128553800	Enhancers	Duodenum Mucosa	Duodenum
49	chr6:128552400-128553800	Strong transcription	Liver	Liver
50	chr6:128552400-128554800	Weak transcription	Brain Hippocampus Middle	brain

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