Variant report

Variant	rs16946340
Chromosome Location	chr16:48667717-48667718
allele	A/G
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	REST	chr16:48667620-48667835	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
ENSG00000260052	TF binding region

Extended variants
information (count: 128 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:128)

rs_ID	r²[population]
rs1039340	0.92[CHB][hapmap]
rs1039341	0.81[AMR][1000 genomes]
rs1039342	0.92[CHB][hapmap]
rs1039344	0.92[CHB][hapmap];0.90[YRI][hapmap];0.81[AMR][1000 genomes]
rs11076570	0.81[AMR][1000 genomes]
rs11076571	0.81[AMR][1000 genomes]
rs11076572	0.92[CHB][hapmap];0.82[AMR][1000 genomes]
rs11076578	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1115759	0.81[AMR][1000 genomes]
rs1120275	0.92[CHB][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes]
rs1120276	0.92[CHB][hapmap]
rs11495819	0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11640119	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11640463	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11641458	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11643272	0.92[CHB][hapmap]
rs11645193	0.81[AMR][1000 genomes]
rs11647046	0.92[CHB][hapmap];0.89[YRI][hapmap];0.83[AMR][1000 genomes]
rs11647048	0.92[CHB][hapmap];0.90[YRI][hapmap];0.83[AMR][1000 genomes]
rs11648101	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11649236	0.92[CHB][hapmap]
rs11859909	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1224	0.92[CHB][hapmap]
rs12444902	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12446280	0.87[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs12597928	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12598514	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12926465	0.85[ASN][1000 genomes]
rs12933948	0.91[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs13330784	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13331298	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13331902	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs13332125	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1477134	0.91[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1486411	0.92[CHB][hapmap]
rs1486412	0.92[CHB][hapmap];0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1558815	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1564979	0.92[CHB][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1564980	0.82[AMR][1000 genomes]
rs16946342	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1872652	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1872654	1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1872655	1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1987061	0.83[AMR][1000 genomes]
rs2041921	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2080507	0.91[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2080508	0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2101372	0.83[AMR][1000 genomes]
rs2129243	0.92[CHB][hapmap];0.80[ASN][1000 genomes]
rs28432694	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28449353	0.81[EUR][1000 genomes]
rs28481630	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28577888	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28692806	0.87[ASN][1000 genomes]
rs2883475	0.82[CHB][hapmap]
rs2883641	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3743779	0.92[CHB][hapmap]
rs3743780	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs3817029	0.92[CHB][hapmap]
rs3843724	0.92[CHB][hapmap];0.90[YRI][hapmap];0.81[AMR][1000 genomes]
rs3859121	0.82[CHB][hapmap];0.93[JPT][hapmap]
rs4277341	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4471681	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4493038	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4785247	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4785248	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4785528	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57903644	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61098261	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6500395	0.92[CHB][hapmap]
rs6500397	0.80[ASN][1000 genomes]
rs6500398	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6500405	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7184070	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7185541	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7185899	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7188741	0.92[CHB][hapmap]
rs7191225	0.96[CEU][hapmap];0.92[CHB][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7192297	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7194570	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7195684	0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7196823	0.92[CHB][hapmap]
rs7197732	0.81[AMR][1000 genomes]
rs7198145	0.96[CEU][hapmap];0.92[CHB][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7199206	0.91[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7199625	0.87[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7201196	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7204345	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74017013	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8044519	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8050844	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8052073	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8052640	0.92[CHB][hapmap]
rs8053598	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8058362	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs8059819	1.00[CHB][hapmap];0.93[JPT][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8059905	0.92[CHB][hapmap]
rs868792	0.92[CHB][hapmap]
rs904818	0.92[CHB][hapmap]
rs989070	0.92[CHB][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes]
rs9921737	0.92[CHB][hapmap];0.90[YRI][hapmap];0.81[AMR][1000 genomes]
rs9921741	0.92[CHB][hapmap];0.90[YRI][hapmap];0.81[AMR][1000 genomes]
rs9922356	0.92[CHB][hapmap];0.89[YRI][hapmap];0.83[AMR][1000 genomes]
rs9922734	0.92[CHB][hapmap]
rs9924078	0.82[CHB][hapmap]
rs9924483	0.85[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9925406	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9927888	0.83[CHB][hapmap]
rs9930199	0.92[CHB][hapmap]
rs9930644	0.96[CEU][hapmap];0.83[CHB][hapmap];0.83[EUR][1000 genomes]
rs9931123	0.92[CHB][hapmap]
rs9931737	0.92[CHB][hapmap]
rs9933187	0.82[CHB][hapmap]
rs9933329	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9933976	0.92[CHB][hapmap]
rs9934626	0.92[CHB][hapmap];0.90[YRI][hapmap];0.81[AMR][1000 genomes]
rs9934844	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9936445	0.92[CHB][hapmap];0.90[YRI][hapmap];0.81[AMR][1000 genomes]
rs9936446	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9936454	0.83[CHB][hapmap]
rs9937134	0.81[AMR][1000 genomes]
rs9937568	0.92[CHB][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes]
rs9937610	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9937623	0.91[CHB][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes]
rs9938126	0.81[AMR][1000 genomes]
rs9939103	0.92[CHB][hapmap]
rs9941275	0.92[CHB][hapmap]
rs9941336	0.86[AMR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16946340	N4BP1	cis	multi-tissue	Pritchard

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:48658000-48670400	Weak transcription	Pancreas	Pancrea
2	chr16:48664000-48674000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr16:48666400-48667800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr16:48667400-48668200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links