Variant report

Variant	rs7728400
Chromosome Location	chr5:116357473-116357474
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10035261	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10037847	0.81[EUR][1000 genomes]
rs10039238	0.87[EUR][1000 genomes]
rs10040194	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10040196	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10045927	0.85[EUR][1000 genomes]
rs10071164	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10074601	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10075567	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10076519	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10079735	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10478319	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10478320	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11241409	0.92[EUR][1000 genomes]
rs12719224	0.80[EUR][1000 genomes]
rs13157896	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13175694	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13181718	0.87[EUR][1000 genomes]
rs1350573	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1350574	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1459083	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1459085	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1459091	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1459092	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1459094	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1459095	0.82[EUR][1000 genomes]
rs1903111	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2125581	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2168993	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2168996	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2199145	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28534402	0.85[EUR][1000 genomes]
rs3900640	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4512160	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4568398	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4583923	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4920944	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6594991	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6594993	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6594994	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6594995	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6594996	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6594997	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6594998	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6595001	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6595002	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6862230	0.84[EUR][1000 genomes]
rs6866207	0.81[EUR][1000 genomes]
rs6868388	0.84[EUR][1000 genomes]
rs6886797	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6888681	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6897596	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7701572	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7706678	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7716867	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7730991	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9285886	0.85[EUR][1000 genomes]
rs9327022	0.81[AMR][1000 genomes]
rs9327023	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs979883	0.85[AMR][1000 genomes];0.87[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	nsv1033379	chr5:116244963-116464338	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1016586	chr5:116317968-116377074	Weak transcription ZNF genes & repeats Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1028067	chr5:116340955-116427869	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv4970	chr5:116345489-116390583	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv882751	chr5:116349590-116453954	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 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	chr5:116349600-116358200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr5:116356600-116366800	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links