Variant report

Variant	rs6135600
Chromosome Location	chr20:15898322-15898323
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs12624676	0.93[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2281418	0.81[AMR][1000 genomes]
rs58630549	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59581588	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs60190468	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6074983	0.85[ASN][1000 genomes]
rs6080024	0.90[ASN][1000 genomes]
rs6080032	0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6080044	0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6080048	0.81[AMR][1000 genomes]
rs6080055	0.91[AMR][1000 genomes]
rs6080056	0.91[AMR][1000 genomes]
rs6080057	0.91[AMR][1000 genomes]
rs6080058	0.91[AMR][1000 genomes]
rs6080064	0.88[ASN][1000 genomes]
rs6131739	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6131740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6131741	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6131743	0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6131745	0.89[AMR][1000 genomes]
rs6131747	0.93[AMR][1000 genomes]
rs6131749	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6131750	0.88[ASN][1000 genomes]
rs6135581	1.00[AFR][1000 genomes]
rs6135582	1.00[AFR][1000 genomes]
rs6135586	1.00[AFR][1000 genomes]
rs6135593	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6135594	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6135595	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6135598	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6135601	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6135602	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6135603	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6135604	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6135605	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6135606	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6135607	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6135608	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6135613	1.00[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6135614	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6135620	0.84[ASN][1000 genomes]
rs8183396	0.88[AMR][1000 genomes];0.84[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:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15884400-15917400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr20:15893600-15899200	Weak transcription	Primary B cells from peripheral blood	blood
3	chr20:15896000-15899000	Weak transcription	Primary B cells from cord blood	blood
4	chr20:15896600-15898800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr20:15896800-15898800	Enhancers	HMEC	breast
6	chr20:15897200-15898400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr20:15897400-15898800	Enhancers	Rectal Smooth Muscle	rectum
8	chr20:15897600-15898600	Enhancers	Colon Smooth Muscle	Colon
9	chr20:15897800-15907600	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr20:15898200-15898400	Enhancers	Hela-S3	cervix
11	chr20:15898200-15899000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr20:15898200-15899200	Weak transcription	Fetal Kidney	kidney
13	chr20:15898200-15902600	Weak transcription	Fetal Stomach	stomach

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