Variant report

Variant	rs2010909
Chromosome Location	chr5:93617889-93617890
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10463161	0.83[CHB][hapmap]
rs10463185	0.93[CHB][hapmap]
rs10463186	0.93[CHB][hapmap]
rs10463187	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10491400	1.00[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.85[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11749838	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12659752	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12660022	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs160268	0.81[CHB][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes]
rs160270	0.81[CHB][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs160272	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs160273	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs160275	0.85[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17082131	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17083483	0.92[CHB][hapmap]
rs17083516	0.94[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17083564	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17083566	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1841298	0.92[CHB][hapmap]
rs1841300	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1841301	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2125887	0.93[CHB][hapmap]
rs2434364	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs2446772	0.85[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2914322	0.83[EUR][1000 genomes]
rs2926571	0.85[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs29951	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs29952	0.85[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs29953	0.83[CEU][hapmap];0.84[CHB][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs29959	0.83[CHB][hapmap];0.81[JPT][hapmap]
rs29960	0.85[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs29961	0.81[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap]
rs366404	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs39810	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs401521	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs405029	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs412437	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs424374	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs429519	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs442817	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs443577	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs447540	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4546363	0.93[CHB][hapmap]
rs485494	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6859083	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6890849	0.92[CHB][hapmap]
rs7706373	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9686308	0.80[JPT][hapmap]
rs9686315	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9763486	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9764893	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs979264	0.95[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][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	nsv1023191	chr5:93351646-93947928	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv537808	chr5:93351646-93947928	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	esv2753025	chr5:93356544-93812844	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1024014	chr5:93460441-93655609	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv830406	chr5:93514329-93683512	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1027890	chr5:93584978-93873704	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
7	nsv537809	chr5:93584978-93873704	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
8	nsv882385	chr5:93589609-93697852	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv823134	chr5:93593894-93664537	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:93613000-93622400	Weak transcription	Hela-S3	cervix
2	chr5:93617000-93618000	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr5:93617000-93619200	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr5:93617200-93618000	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr5:93617600-93621000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:93617800-93621400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr5:93617800-93621400	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr5:93617800-93622200	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:93617800-93631000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr5:93617800-93631400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links