Variant report

Variant	rs1249656
Chromosome Location	chr1:75790354-75790355
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1004053	0.85[ASN][1000 genomes]
rs10493571	0.88[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10493573	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10874149	0.85[ASN][1000 genomes]
rs11162810	0.81[CEU][hapmap]
rs11163074	0.83[ASN][1000 genomes]
rs11163089	0.92[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11163095	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11163114	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11163154	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163155	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163185	0.81[CEU][hapmap];0.83[CHB][hapmap];0.89[ASN][1000 genomes]
rs1144297	0.85[CEU][hapmap]
rs12030510	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12038999	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12404058	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1249655	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1249657	0.81[CEU][hapmap];0.83[CHB][hapmap];0.84[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs1249659	0.81[CEU][hapmap];0.83[CHB][hapmap];0.89[ASN][1000 genomes]
rs1249660	0.89[ASN][1000 genomes]
rs1249670	0.85[ASN][1000 genomes]
rs1249675	0.85[ASN][1000 genomes]
rs1249845	0.82[CEU][hapmap];0.84[CHB][hapmap];0.85[YRI][hapmap]
rs12562924	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12726507	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12744088	0.88[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12756704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1343517	0.81[CEU][hapmap];0.83[CHB][hapmap];0.88[ASN][1000 genomes]
rs1505258	0.82[CEU][hapmap];0.84[CHB][hapmap];0.89[ASN][1000 genomes]
rs1613680	0.85[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs1700893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2135142	0.89[ASN][1000 genomes]
rs2657206	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs623850	0.92[JPT][hapmap]
rs6593571	0.85[ASN][1000 genomes]
rs6656537	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6658610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6689909	0.81[CEU][hapmap]
rs7548993	0.88[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[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	esv3368999	chr1:75524762-75933220	Bivalent/Poised TSS Strong transcription Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1013952	chr1:75716654-75936048	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv535004	chr1:75716654-75936048	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:75789800-75793600	Weak transcription	Psoas Muscle	Psoas
2	chr1:75790200-75797000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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