Variant report

Variant	rs6595842
Chromosome Location	chr5:127903628-127903629
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:127896126..127898974-chr5:127902072..127903856,2	MCF-7	breast:
2	chr5:127881388..127883013-chr5:127901894..127903649,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10039900	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10040056	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10062344	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10063362	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10063961	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10073583	0.83[AFR][1000 genomes]
rs10477685	1.00[CEU][hapmap]
rs10478813	1.00[CEU][hapmap]
rs10478814	1.00[CEU][hapmap]
rs17164094	1.00[CEU][hapmap]
rs17164113	0.82[CEU][hapmap]
rs55735252	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58889726	0.84[EUR][1000 genomes]
rs60975118	0.90[EUR][1000 genomes]
rs6595830	0.85[CEU][hapmap]
rs6595831	0.82[CEU][hapmap]
rs6595834	1.00[CEU][hapmap]
rs6595836	1.00[CEU][hapmap]
rs6595837	1.00[CEU][hapmap]
rs6595841	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6860199	0.85[CEU][hapmap]
rs6864057	0.82[CEU][hapmap]
rs6886186	1.00[CEU][hapmap]
rs6892484	1.00[CEU][hapmap]
rs6893116	1.00[CEU][hapmap]
rs6893181	1.00[CEU][hapmap]
rs6893248	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6893301	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73787623	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73787627	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs768744	0.85[CEU][hapmap]
rs7708713	0.82[CEU][hapmap]
rs7713044	0.85[CEU][hapmap]
rs7722917	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs7722950	0.85[CEU][hapmap]
rs7723500	0.85[CEU][hapmap]
rs7726535	1.00[CEU][hapmap]
rs9327478	1.00[CEU][hapmap]
rs9885266	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531991	chr5:127624564-127966085	Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv427734	chr5:127805281-128088632	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv9966	chr5:127895818-127904284	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv3386680	chr5:127903453-127907351	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:127901400-127904000	Enhancers	Placenta	Placenta
2	chr5:127902600-127907200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr5:127902600-127907400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr5:127902800-127907800	Weak transcription	A549	lung
5	chr5:127903200-127903800	Enhancers	Placenta Amnion	Placenta Amnion
6	chr5:127903400-127904200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr5:127903600-127904200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr5:127903600-127904200	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links