Variant report

Variant	rs56217411
Chromosome Location	chr3:120789667-120789668
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs56152560	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56183568	1.00[AMR][1000 genomes]
rs56906034	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57251228	1.00[AMR][1000 genomes]
rs57649553	1.00[AMR][1000 genomes]
rs57695248	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57745805	1.00[AMR][1000 genomes]
rs58338355	1.00[AMR][1000 genomes]
rs59353219	1.00[AMR][1000 genomes]
rs59489729	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59634035	1.00[AMR][1000 genomes]
rs60103718	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60639242	1.00[AMR][1000 genomes]
rs61059986	1.00[AMR][1000 genomes]
rs61661959	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73855303	1.00[AMR][1000 genomes]
rs73855304	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73855313	1.00[AMR][1000 genomes]
rs73855318	1.00[AMR][1000 genomes]
rs73855319	1.00[AMR][1000 genomes]
rs73855320	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73855330	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73855332	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73855340	1.00[AMR][1000 genomes]
rs73855343	1.00[AMR][1000 genomes]
rs73855344	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73855345	1.00[AMR][1000 genomes]
rs73855346	1.00[AMR][1000 genomes]
rs73855347	1.00[AMR][1000 genomes]
rs73855348	1.00[AMR][1000 genomes]
rs73855349	1.00[AMR][1000 genomes]
rs73855356	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73858205	1.00[AMR][1000 genomes]
rs73858206	1.00[AMR][1000 genomes]
rs73858208	1.00[AMR][1000 genomes]
rs73858218	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73858239	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869548	chr3:120320731-121076337	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv916869	chr3:120360281-120973169	Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1005275	chr3:120700604-121102735	Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
4	nsv998555	chr3:120700604-121348015	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
5	nsv1005551	chr3:120710530-120803826	Strong transcription Enhancers ZNF genes & repeats Weak transcription	TF binding region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1008441	chr3:120730017-121102735	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
7	nsv536709	chr3:120730017-121102735	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1005525	chr3:120749594-121027161	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
9	esv3333771	chr3:120789095-120798225	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:120769000-120791200	Weak transcription	Ovary	ovary
2	chr3:120781600-120790800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr3:120789600-120790200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links