Variant report

Variant	rs7540974
Chromosome Location	chr1:47969496-47969497
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:47626285..47627872-chr1:47968259..47970134,2	K562	blood:
2	chr1:47969201..47969784-chr1:48175911..48176781,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10158498	0.92[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10158499	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10749868	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10890483	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10890484	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10890485	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10890487	0.89[ASN][1000 genomes]
rs12143164	0.86[ASN][1000 genomes]
rs1337527	0.91[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1337528	0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1415540	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1415541	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1572547	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1572548	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2065946	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2065947	0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2065948	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs498352	0.82[AMR][1000 genomes]
rs502997	0.82[AMR][1000 genomes]
rs512014	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs513464	0.91[CEU][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs517384	0.82[AMR][1000 genomes]
rs518025	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs570605	0.82[AMR][1000 genomes]
rs578633	0.83[AMR][1000 genomes]
rs663650	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6693428	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7517146	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7528714	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7537527	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7543774	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7544826	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7547288	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7552647	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7555100	0.80[AMR][1000 genomes];0.86[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	nsv1001779	chr1:47884229-48111485	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv871299	chr1:47889417-48057890	Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	esv2755190	chr1:47907580-48048680	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:47969000-47969600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:47969400-47969600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links