Variant report

Variant	rs12664361
Chromosome Location	chr6:54910962-54910963
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10485136	0.94[CHB][hapmap]
rs10948880	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1115159	0.88[CHB][hapmap]
rs11754240	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11756900	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13192291	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13208701	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs148109	0.81[CHB][hapmap]
rs1503147	0.88[CHB][hapmap]
rs2064432	0.94[CHB][hapmap]
rs2816811	0.82[CHB][hapmap]
rs4141552	0.88[CHB][hapmap]
rs4588693	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4712081	0.94[CHB][hapmap]
rs4712092	0.81[CHB][hapmap]
rs4715515	0.85[AMR][1000 genomes]
rs6908568	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7453866	0.88[CHB][hapmap]
rs8180551	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9296771	0.94[CHB][hapmap]
rs932452	0.82[ASW][hapmap];0.94[CHB][hapmap]
rs9349753	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9357840	0.95[CEU][hapmap];0.94[CHB][hapmap];0.97[GIH][hapmap];0.97[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9367597	0.83[ASW][hapmap];0.94[CHB][hapmap]
rs9367607	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9367608	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs9370332	0.84[CHB][hapmap]
rs9370333	0.84[CHB][hapmap]
rs9370371	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9370388	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9382440	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9382442	0.81[CHB][hapmap]
rs9396006	0.93[CHB][hapmap]
rs9396034	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9396036	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9464182	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9475130	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3364886	chr6:54880042-54912395	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
2	nsv1033756	chr6:54881828-54944304	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv538225	chr6:54881828-54944304	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54909400-54911400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:54910000-54911400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:54910000-54911600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr6:54910600-54913800	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr6:54910600-54913800	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr6:54910800-54911400	Enhancers	Monocytes-CD14+_RO01746	blood

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