Variant report

Variant	rs6506891
Chromosome Location	chr18:28741908-28741909
allele	A/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:43)

rs_ID	r²[population]
rs10853409	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11081681	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1437605	0.80[EUR][1000 genomes]
rs1437606	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1437608	0.90[JPT][hapmap]
rs1437610	0.87[JPT][hapmap]
rs1437611	0.90[JPT][hapmap]
rs1437612	0.90[JPT][hapmap]
rs1816632	0.89[AFR][1000 genomes]
rs1816633	0.89[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes]
rs2118342	0.89[JPT][hapmap]
rs2118343	0.90[JPT][hapmap]
rs2164766	0.90[JPT][hapmap]
rs2217989	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246736	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2246737	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2249810	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2254170	0.90[JPT][hapmap]
rs2577064	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577066	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2577067	0.89[JPT][hapmap]
rs2741000	0.89[JPT][hapmap]
rs2851999	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2852000	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2852001	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3786167	0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3786168	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4325646	0.89[JPT][hapmap]
rs6506884	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6506885	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6506887	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6506889	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6506890	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6506894	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7238415	0.88[JPT][hapmap]
rs7244982	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7245164	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7245261	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8090853	0.88[JPT][hapmap]
rs8097223	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9952351	0.90[JPT][hapmap]
rs9956307	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9959845	0.90[JPT][hapmap]

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	nsv530788	chr18:28596461-28751891	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	esv3360998	chr18:28693111-28881812	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv132191	chr18:28739028-28745912	Active TSS Flanking Active TSS Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv131242	chr18:28739028-28748058	Weak transcription Active TSS Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28730600-28742600	Weak transcription	Esophagus	oesophagus
2	chr18:28733400-28742000	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr18:28737400-28746400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr18:28737600-28742000	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr18:28737600-28742200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr18:28737600-28742200	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr18:28737600-28742400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr18:28737800-28742000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr18:28738000-28742200	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr18:28741400-28742200	Enhancers	HMEC	breast
11	chr18:28741400-28742200	Enhancers	NHEK	skin
12	chr18:28741400-28742800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
13	chr18:28741400-28743200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr18:28741400-28743200	Flanking Active TSS	Primary T cells from cord blood	blood
15	chr18:28741400-28743200	Active TSS	Primary T killer naive cells fromperipheralblood	blood
16	chr18:28741600-28742000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr18:28741800-28742000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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