Variant report

Variant	rs6043594
Chromosome Location	chr20:15863584-15863585
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs35671388	0.89[AFR][1000 genomes]
rs3827081	0.80[CEU][hapmap];0.83[GIH][hapmap];0.88[MEX][hapmap];0.84[EUR][1000 genomes]
rs6034316	0.95[LWK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6034317	0.85[ASN][1000 genomes]
rs6034319	0.90[CEU][hapmap];0.88[MEX][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs6043590	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6043592	0.85[ASN][1000 genomes]
rs6043593	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6043596	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6043597	1.00[LWK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs6131736	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6135588	0.83[MEX][hapmap]
rs6135589	0.80[CEU][hapmap];0.88[GIH][hapmap];0.94[MEX][hapmap];0.85[EUR][1000 genomes]
rs6135590	0.80[CEU][hapmap];0.94[MEX][hapmap];0.82[EUR][1000 genomes]
rs6135591	0.90[CEU][hapmap];0.88[MEX][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs6135594	0.83[MEX][hapmap]
rs8118541	0.90[CEU][hapmap];0.92[EUR][1000 genomes]
rs932501	0.84[CHD][hapmap]

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	nsv869328	chr20:15325423-16213898	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv833929	chr20:15765372-15977337	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3447866	chr20:15799286-16115291	Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15856400-15869800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr20:15856800-15865400	Weak transcription	Primary B cells from cord blood	blood
3	chr20:15862200-15866800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr20:15863000-15863600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr20:15863000-15863800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr20:15863000-15864000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr20:15863200-15863600	Enhancers	HUES48 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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