Variant report

Variant	rs895642
Chromosome Location	chr6:55785780-55785781
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10498808	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12198217	0.99[ASN][1000 genomes]
rs12199367	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12209768	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1447127	0.94[ASN][1000 genomes]
rs1447128	0.85[ASN][1000 genomes]
rs1562407	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1562408	0.96[ASN][1000 genomes]
rs16887395	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1838946	0.87[ASN][1000 genomes]
rs1868031	0.85[ASN][1000 genomes]
rs2021803	0.81[CHD][hapmap]
rs2028956	0.92[ASN][1000 genomes]
rs2044542	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2044543	0.96[ASN][1000 genomes]
rs2056424	0.96[ASN][1000 genomes]
rs3807016	0.81[CHD][hapmap]
rs4560651	0.90[ASN][1000 genomes]
rs4574618	0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4599631	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4715570	0.99[ASN][1000 genomes]
rs4715571	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6459111	0.87[ASN][1000 genomes]
rs6459112	0.85[ASN][1000 genomes]
rs6459113	0.96[ASN][1000 genomes]
rs6459115	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6459116	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6459118	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6912214	0.82[CHD][hapmap]
rs6925961	0.99[ASN][1000 genomes]
rs6932412	0.94[ASN][1000 genomes]
rs7752119	0.96[ASN][1000 genomes]
rs7755388	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7755393	0.94[ASN][1000 genomes]
rs895641	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs895643	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296809	0.99[ASN][1000 genomes]
rs9296810	0.97[ASN][1000 genomes]
rs9464303	0.96[ASN][1000 genomes]
rs9475467	0.96[ASN][1000 genomes]
rs9475469	0.96[ASN][1000 genomes]
rs9475471	0.99[ASN][1000 genomes]
rs9475472	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475473	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475477	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9475480	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs978930	0.82[CHD][hapmap]
rs9885708	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034037	chr6:55222409-56069600	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1024174	chr6:55713889-55829936	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1029301	chr6:55713889-55834480	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv830665	chr6:55755560-55920219	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv5312	chr6:55784991-55830051	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:55783400-55789800	Weak transcription	NHEK	skin
2	chr6:55784200-55789600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:55784600-55789800	Weak transcription	Hela-S3	cervix
4	chr6:55784800-55789800	Weak transcription	HMEC	breast
5	chr6:55785000-55789000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:55785400-55786200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links