Variant report

Variant	rs6135589
Chromosome Location	chr20:15872006-15872007
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs13045800	1.00[YRI][hapmap]
rs3827081	1.00[CEU][hapmap];0.82[CHD][hapmap];0.86[GIH][hapmap];0.94[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4387866	1.00[YRI][hapmap]
rs6034319	0.89[CEU][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.94[MEX][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6043590	0.80[CEU][hapmap];0.88[GIH][hapmap];0.89[MEX][hapmap];0.85[EUR][1000 genomes]
rs6043593	0.89[CEU][hapmap];0.92[GIH][hapmap];0.94[MEX][hapmap];0.82[TSI][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6043594	0.80[CEU][hapmap];0.88[GIH][hapmap];0.94[MEX][hapmap];0.85[EUR][1000 genomes]
rs6043596	0.80[CEU][hapmap];0.88[GIH][hapmap];0.89[MEX][hapmap];0.85[EUR][1000 genomes]
rs6131736	0.85[EUR][1000 genomes]
rs6135588	0.88[MEX][hapmap]
rs6135590	1.00[CEU][hapmap];0.82[GIH][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6135591	0.89[CEU][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.94[MEX][hapmap];0.83[MKK][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6135594	0.88[MEX][hapmap]
rs6135608	0.81[MEX][hapmap]
rs8118541	0.89[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[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	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	chr20:15870000-15872200	Enhancers	Primary B cells from peripheral blood	blood
2	chr20:15870800-15874800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr20:15870800-15876200	Weak transcription	GM12878-XiMat	blood
4	chr20:15871200-15874600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr20:15871400-15874600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr20:15871800-15875600	Weak transcription	HSMM	muscle
7	chr20:15872000-15875800	Strong transcription	Primary B cells from cord blood	blood

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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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