Variant report

Variant	rs10028615
Chromosome Location	chr4:21728377-21728378
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10002190	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10002260	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10004616	0.87[AMR][1000 genomes]
rs10004658	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10006346	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10029020	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10034459	1.00[EUR][1000 genomes]
rs1034501	1.00[EUR][1000 genomes]
rs1034502	1.00[EUR][1000 genomes]
rs1158455	1.00[EUR][1000 genomes]
rs11731835	0.93[YRI][hapmap]
rs13102999	1.00[EUR][1000 genomes]
rs1398831	1.00[EUR][1000 genomes]
rs1503980	0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1503981	0.89[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1543101	1.00[EUR][1000 genomes]
rs1588709	1.00[EUR][1000 genomes]
rs16871483	1.00[EUR][1000 genomes]
rs16871486	1.00[EUR][1000 genomes]
rs16871503	1.00[EUR][1000 genomes]
rs16871729	0.80[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871771	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871794	1.00[EUR][1000 genomes]
rs16871797	1.00[EUR][1000 genomes]
rs16871810	0.85[AMR][1000 genomes]
rs16871821	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871823	0.96[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16871835	1.00[EUR][1000 genomes]
rs16871838	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs16871877	0.80[ASW][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.96[YRI][hapmap];1.00[EUR][1000 genomes]
rs16871884	0.96[YRI][hapmap];1.00[EUR][1000 genomes]
rs1841374	1.00[EUR][1000 genomes]
rs187237	1.00[EUR][1000 genomes]
rs1901172	1.00[AMR][1000 genomes]
rs2044806	1.00[EUR][1000 genomes]
rs2137651	1.00[EUR][1000 genomes]
rs2323074	0.85[AMR][1000 genomes]
rs28360924	0.85[AMR][1000 genomes]
rs28377254	1.00[EUR][1000 genomes]
rs28378411	1.00[EUR][1000 genomes]
rs28379124	1.00[EUR][1000 genomes]
rs28399840	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28455666	0.85[AMR][1000 genomes]
rs28456170	1.00[EUR][1000 genomes]
rs28463803	1.00[EUR][1000 genomes]
rs28513676	0.85[AMR][1000 genomes]
rs28560247	1.00[EUR][1000 genomes]
rs28578090	1.00[EUR][1000 genomes]
rs28662772	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs360689	1.00[EUR][1000 genomes]
rs360699	1.00[EUR][1000 genomes]
rs4101628	0.93[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4101630	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4235292	1.00[EUR][1000 genomes]
rs4289435	1.00[EUR][1000 genomes]
rs4438750	1.00[EUR][1000 genomes]
rs4696983	1.00[EUR][1000 genomes]
rs4696990	1.00[EUR][1000 genomes]
rs4697239	1.00[EUR][1000 genomes]
rs4697240	1.00[EUR][1000 genomes]
rs4697242	1.00[EUR][1000 genomes]
rs4697245	1.00[EUR][1000 genomes]
rs55820441	1.00[EUR][1000 genomes]
rs55906210	1.00[EUR][1000 genomes]
rs57298063	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58744364	1.00[EUR][1000 genomes]
rs59037882	1.00[EUR][1000 genomes]
rs59247815	1.00[EUR][1000 genomes]
rs6448090	1.00[EUR][1000 genomes]
rs6810989	1.00[EUR][1000 genomes]
rs6814288	1.00[EUR][1000 genomes]
rs6819373	1.00[EUR][1000 genomes]
rs6821199	0.93[ASW][hapmap];1.00[MEX][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6825430	1.00[EUR][1000 genomes]
rs6835916	1.00[EUR][1000 genomes]
rs6836067	1.00[EUR][1000 genomes]
rs6836263	1.00[EUR][1000 genomes]
rs6836739	1.00[EUR][1000 genomes]
rs6840933	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7438259	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs7655030	1.00[EUR][1000 genomes]
rs7656388	1.00[EUR][1000 genomes]
rs7662861	1.00[EUR][1000 genomes]
rs7666663	1.00[EUR][1000 genomes]
rs7671356	1.00[EUR][1000 genomes]
rs7671527	1.00[EUR][1000 genomes]
rs7672938	1.00[EUR][1000 genomes]
rs7683672	1.00[EUR][1000 genomes]
rs7688144	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7689554	0.89[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs907788	1.00[EUR][1000 genomes]
rs907789	1.00[EUR][1000 genomes]
rs971878	1.00[EUR][1000 genomes]
rs9784415	0.89[YRI][hapmap];1.00[EUR][1000 genomes]
rs9991631	1.00[EUR][1000 genomes]
rs9996615	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817467	chr4:21602921-22422816	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv878751	chr4:21712050-21793807	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:21727200-21729400	Weak transcription	Fetal Brain Male	brain
2	chr4:21727600-21728400	Enhancers	Colon Smooth Muscle	Colon
3	chr4:21727600-21728400	Enhancers	Stomach Mucosa	stomach
4	chr4:21727600-21728600	Enhancers	HUVEC	blood vessel
5	chr4:21727800-21728400	Enhancers	Fetal Heart	heart
6	chr4:21728200-21728600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:21728200-21729000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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