Variant report

Variant	rs73588318
Chromosome Location	chr6:142882753-142882754
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11155253	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11155254	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12190036	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12191805	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12191946	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12194448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12197895	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12199515	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12202680	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12203291	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12203643	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12203842	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12206762	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12208034	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12208386	0.93[ASN][1000 genomes]
rs12208860	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12209687	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12209912	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17071853	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17071855	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28883110	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4339484	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5005418	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55669522	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55786645	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57341971	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57589155	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57818992	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57876681	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57879296	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58539996	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58697749	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59695424	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61126241	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6570519	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6929064	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73588317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73588321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73590133	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73590163	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73590192	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73590199	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7746631	0.82[EUR][1000 genomes]
rs7751673	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755667	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7756064	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7766583	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7770363	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1023426	chr6:142813845-142940262	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830827	chr6:142840734-143015005	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv520479	chr6:142869099-142908146	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142873600-142888800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:142881800-142884200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
3	chr6:142881800-142884400	Enhancers	Primary T cells from cord blood	blood
4	chr6:142882000-142883400	Enhancers	Dnd41	blood
5	chr6:142882000-142883800	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr6:142882000-142884000	Enhancers	Primary T killer memory cells from peripheral blood	blood
7	chr6:142882000-142884200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr6:142882000-142884200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr6:142882000-142884400	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr6:142882200-142883600	Enhancers	Fetal Thymus	thymus
11	chr6:142882200-142884000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr6:142882200-142884200	Enhancers	Primary T cells fromperipheralblood	blood
13	chr6:142882400-142882800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
14	chr6:142882400-142883000	Enhancers	Thymus	Thymus
15	chr6:142882400-142884200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr6:142882600-142889400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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