Variant report

Variant	rs6434167
Chromosome Location	chr2:187158692-187158693
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10169008	0.89[ASN][1000 genomes]
rs10169206	0.89[ASN][1000 genomes]
rs10177153	0.84[CEU][hapmap];0.89[ASN][1000 genomes]
rs10178888	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10190003	0.87[CEU][hapmap]
rs10198525	0.83[CEU][hapmap]
rs10200749	0.83[CEU][hapmap]
rs10205170	0.89[ASN][1000 genomes]
rs1037241	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10931240	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11675633	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11680486	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11690758	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11692028	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11692347	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11693797	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11888880	0.89[ASN][1000 genomes]
rs11888881	0.89[ASN][1000 genomes]
rs11895483	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11898666	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11901465	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11903027	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13392819	0.95[CEU][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13393891	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13398352	0.89[ASN][1000 genomes]
rs13414850	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13428033	0.91[CEU][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1448848	0.95[CEU][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1448849	0.95[CEU][hapmap];0.92[EUR][1000 genomes]
rs1448855	0.84[CEU][hapmap];0.89[ASN][1000 genomes]
rs1448857	0.89[ASN][1000 genomes]
rs1868383	0.95[CEU][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2044683	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2084488	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2084490	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2197139	0.89[CEU][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2370688	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2887826	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34234405	0.89[ASN][1000 genomes]
rs35642346	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55719959	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56137171	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61226319	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61434493	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6434174	0.83[CEU][hapmap];0.89[ASN][1000 genomes]
rs6709401	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs6710436	0.80[ASN][1000 genomes]
rs6715493	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6716324	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6717505	0.89[ASN][1000 genomes]
rs6717525	0.95[CEU][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6728382	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6728400	0.89[ASN][1000 genomes]
rs6731567	0.95[CEU][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6744717	0.95[CEU][hapmap];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72893450	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72895449	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72897386	0.92[EUR][1000 genomes]
rs72899852	0.83[EUR][1000 genomes]
rs72905615	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7579259	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7582412	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7584137	0.95[CEU][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7585889	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7585905	0.80[ASN][1000 genomes]
rs7588607	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7606920	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9917285	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875545	chr2:186566024-187280164	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv817325	chr2:186625679-187200841	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv868949	chr2:186657142-187327560	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv932296	chr2:186737443-187265790	Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv875548	chr2:186798249-187164657	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1014726	chr2:187036909-187213113	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv536078	chr2:187036909-187213113	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv961743	chr2:187148271-187159618	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1006411	chr2:187150025-187291081	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv536079	chr2:187150025-187291081	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6434167	ZC3H15	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:187147800-187167600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links