Variant report

Variant	rs61598729
Chromosome Location	chr3:46070577-46070578
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NFYA	chr3:46070515-46070697	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
XCR1	TF binding region

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:110)

rs_ID	r²[population]
rs10049103	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1078355	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12107160	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12107288	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13060287	0.88[AFR][1000 genomes]
rs13074382	0.86[AFR][1000 genomes]
rs13081213	0.88[AFR][1000 genomes]
rs13082697	0.88[AFR][1000 genomes]
rs13089855	0.89[AFR][1000 genomes]
rs13090194	0.89[AFR][1000 genomes]
rs13097556	0.89[AFR][1000 genomes]
rs13325425	1.00[EUR][1000 genomes]
rs1352880	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1491954	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17078464	0.82[AMR][1000 genomes]
rs1846618	1.00[EUR][1000 genomes]
rs1873615	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2036294	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2036296	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2088690	0.88[AFR][1000 genomes]
rs2088691	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2088692	0.88[AFR][1000 genomes]
rs2088693	0.80[AFR][1000 genomes]
rs2102055	0.85[AFR][1000 genomes]
rs2102056	0.85[AFR][1000 genomes]
rs2230322	0.89[AFR][1000 genomes]
rs28393246	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28454181	1.00[EUR][1000 genomes]
rs34168660	0.89[AFR][1000 genomes]
rs34493660	0.97[AFR][1000 genomes]
rs34584867	0.88[AFR][1000 genomes]
rs34774687	0.88[AFR][1000 genomes]
rs35159820	0.84[AFR][1000 genomes]
rs35454877	0.89[AFR][1000 genomes]
rs35669129	0.89[AFR][1000 genomes]
rs35814488	0.88[AFR][1000 genomes]
rs35921206	0.89[AFR][1000 genomes]
rs35930050	0.89[AFR][1000 genomes]
rs36040135	0.89[AFR][1000 genomes]
rs4362758	0.89[AFR][1000 genomes]
rs4630978	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55743140	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55875328	0.89[AFR][1000 genomes]
rs56071453	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56239523	0.82[AMR][1000 genomes]
rs56738797	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57228214	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs57375372	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57590663	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57636813	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs57768435	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57800045	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57887195	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58050797	0.82[AMR][1000 genomes]
rs58139750	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58402224	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58442576	0.82[AMR][1000 genomes]
rs58460482	0.82[AMR][1000 genomes]
rs58491168	0.82[AMR][1000 genomes]
rs58969771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59065510	1.00[EUR][1000 genomes]
rs59157393	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59676542	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59754516	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60019065	0.83[AFR][1000 genomes]
rs60080146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61201782	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61276379	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61556067	0.89[AFR][1000 genomes]
rs61650989	0.96[AFR][1000 genomes]
rs61686943	1.00[EUR][1000 genomes]
rs67200151	0.89[AFR][1000 genomes]
rs6780028	0.88[AFR][1000 genomes]
rs6788758	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6790866	0.86[AFR][1000 genomes]
rs6791016	0.88[AFR][1000 genomes]
rs6791693	0.91[AMR][1000 genomes]
rs67937868	0.89[AFR][1000 genomes]
rs6794222	1.00[EUR][1000 genomes]
rs6798934	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs68087193	0.88[AFR][1000 genomes]
rs72885402	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72887108	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72887131	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72887154	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72889737	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72889759	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72891111	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72891128	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72891129	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72891712	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs72899100	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72904134	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73830713	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73833519	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7427033	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7627147	0.82[AMR][1000 genomes]
rs7638236	0.82[AMR][1000 genomes]
rs876668	0.89[AFR][1000 genomes]
rs978316	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs978317	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9814908	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9830945	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9831926	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9844424	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9852295	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9854654	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9859291	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9871934	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9882976	0.91[AMR][1000 genomes];1.00[EUR][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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv2756987	chr3:46016464-46120400	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	esv2759145	chr3:46016464-46120400	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv1805205	chr3:46032847-46111081	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links