Variant report

Variant	rs6587116
Chromosome Location	chr17:20961873-20961874
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:20944661..20948274-chr17:20957497..20962088,5	MCF-7	breast:
2	chr17:20945147..20948057-chr17:20960556..20963090,2	K562	blood:
3	chr17:20944844..20947666-chr17:20960698..20963810,4	MCF-7	breast:
4	chr17:20945032..20947669-chr17:20960556..20962372,3	K562	blood:

Variant related genes	Relation type
ENSG00000124422	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10153263	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10512422	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11541314	0.82[ASN][1000 genomes]
rs11650653	1.00[ASN][1000 genomes]
rs11869201	0.82[ASN][1000 genomes]
rs11869217	0.82[ASN][1000 genomes]
rs11869959	0.82[ASN][1000 genomes]
rs12450389	0.82[ASN][1000 genomes]
rs12452171	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12937950	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12947514	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16962364	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1871275	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2127096	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28663143	0.82[ASN][1000 genomes]
rs2886049	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34354508	0.82[ASN][1000 genomes]
rs35022634	1.00[ASN][1000 genomes]
rs4381653	0.82[ASN][1000 genomes]
rs4427861	0.82[ASN][1000 genomes]
rs4985942	1.00[ASN][1000 genomes]
rs4985945	1.00[ASN][1000 genomes]
rs55633111	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57522885	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6587107	1.00[ASN][1000 genomes]
rs6587113	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66487709	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66516868	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs719094	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73303698	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8072149	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8080321	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs984007	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9893047	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9895277	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9895618	0.82[ASN][1000 genomes]
rs9896853	1.00[ASN][1000 genomes]
rs9907786	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9909279	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9914758	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9914916	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949097	chr17:20801739-21406355	Genic enhancers Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv529759	chr17:20839079-21529632	Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:20957600-20963400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr17:20961200-20962600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr17:20961400-20962000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr17:20961600-20962000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr17:20961600-20962200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr17:20961800-20962200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr17:20961800-20962200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr17:20961800-20962200	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr17:20961800-20962200	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr17:20961800-20962200	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr17:20961800-20962200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr17:20961800-20962200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr17:20961800-20962200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr17:20961800-20962400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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