Variant report

Variant	rs225702
Chromosome Location	chr6:142533622-142533623
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs11758623	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs178783	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225601	0.88[ASN][1000 genomes]
rs225602	0.88[ASN][1000 genomes]
rs225604	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs225605	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs225606	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs225618	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs225620	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs225622	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs225623	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs225624	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs225629	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs225630	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs225631	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs225632	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[ASN][1000 genomes]
rs225633	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[ASN][1000 genomes]
rs225634	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[ASN][1000 genomes]
rs225635	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs225636	0.91[ASN][1000 genomes]
rs225639	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs225640	0.91[ASN][1000 genomes]
rs225641	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs225642	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs225643	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs225650	0.95[ASN][1000 genomes]
rs225651	0.95[ASN][1000 genomes]
rs225652	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs225653	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs225654	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs225655	0.95[ASN][1000 genomes]
rs225656	0.83[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs225657	0.83[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs225658	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs225659	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs225660	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[ASN][1000 genomes]
rs225661	0.87[ASN][1000 genomes]
rs225662	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs225663	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs225664	0.95[ASN][1000 genomes]
rs225665	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs225666	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs225667	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs225668	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs225670	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs225671	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs225672	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs225673	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs225674	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225675	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225676	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs225677	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs225678	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs225679	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225680	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225682	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225683	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225684	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225686	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225688	0.89[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs225689	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs225690	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225692	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225693	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225696	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225698	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225701	0.89[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225704	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225705	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225706	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225707	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225708	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs225709	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs225710	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs225728	0.83[ASN][1000 genomes]
rs4896574	0.91[JPT][hapmap];1.00[YRI][hapmap]
rs4896575	0.91[JPT][hapmap]
rs56185739	0.95[ASN][1000 genomes]
rs62430473	0.88[ASN][1000 genomes]
rs62430506	0.85[ASN][1000 genomes]
rs628311	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs638804	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs639658	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7776318	0.81[JPT][hapmap]
rs9321861	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs9389979	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs9389980	0.92[CHB][hapmap];0.82[JPT][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	nsv886732	chr6:142290338-142536049	Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv830824	chr6:142361107-142544929	Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142484200-142533800	Weak transcription	Aorta	Aorta
2	chr6:142489000-142543200	Weak transcription	Small Intestine	intestine
3	chr6:142496200-142533800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:142496200-142533800	Weak transcription	Gastric	stomach
5	chr6:142496200-142533800	Weak transcription	Pancreas	Pancrea
6	chr6:142496600-142533800	Weak transcription	Left Ventricle	heart
7	chr6:142496600-142546800	Weak transcription	NHLF	lung
8	chr6:142507800-142533800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:142510400-142534000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr6:142510400-142534200	Weak transcription	Brain Cingulate Gyrus	brain
11	chr6:142510800-142534600	Weak transcription	Hela-S3	cervix
12	chr6:142515400-142541800	Weak transcription	Psoas Muscle	Psoas
13	chr6:142517200-142535400	Weak transcription	Colon Smooth Muscle	Colon
14	chr6:142517400-142533800	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr6:142518000-142533800	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr6:142518000-142534400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr6:142518000-142534400	Weak transcription	Spleen	Spleen
18	chr6:142518800-142533800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr6:142519000-142534400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:142519600-142533800	Strong transcription	Fetal Thymus	thymus
21	chr6:142519600-142535200	Strong transcription	Primary T helper cells PMA-I stimulated	--
22	chr6:142519600-142541800	Strong transcription	HSMM	muscle
23	chr6:142521600-142542600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr6:142523000-142543000	Weak transcription	Stomach Mucosa	stomach
25	chr6:142523200-142534600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:142526000-142535800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr6:142526400-142533800	Weak transcription	Esophagus	oesophagus
28	chr6:142527400-142534200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr6:142527400-142535800	Strong transcription	Primary T cells fromperipheralblood	blood
30	chr6:142528200-142534200	Weak transcription	NHEK	skin
31	chr6:142528400-142535200	ZNF genes & repeats	Fetal Lung	lung
32	chr6:142528600-142534600	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr6:142528800-142533800	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr6:142528800-142533800	Weak transcription	Lung	lung
35	chr6:142529000-142533800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr6:142529000-142533800	Weak transcription	Fetal Muscle Trunk	muscle
37	chr6:142530800-142534400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr6:142531000-142534000	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr6:142531000-142534000	Strong transcription	Duodenum Smooth Muscle	Duodenum
40	chr6:142531000-142535000	ZNF genes & repeats	Primary B cells from cord blood	blood
41	chr6:142531000-142535200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr6:142531000-142535400	Strong transcription	Primary T cells from cord blood	blood
43	chr6:142531000-142535800	Strong transcription	Rectal Mucosa Donor 29	rectum
44	chr6:142531000-142536400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr6:142531000-142537200	Strong transcription	Liver	Liver
46	chr6:142531200-142535200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
47	chr6:142531200-142535200	Strong transcription	Rectal Mucosa Donor 31	rectum
48	chr6:142531200-142536000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr6:142531400-142535200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr6:142531400-142535800	Strong transcription	Primary T helper naive cells from peripheral blood	blood

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