Variant report

Variant	rs10509634
Chromosome Location	chr10:93518211-93518212
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:93516701..93519055-chr10:93667425..93669628,2	MCF-7	breast:
2	chr10:93517264..93519065-chr10:93684545..93687279,2	MCF-7	breast:
3	chr10:93518180..93519047-chr10:93672190..93673222,5	MCF-7	breast:
4	chr10:93517982..93519871-chr10:93667537..93669096,2	MCF-7	breast:
5	chr10:93517456..93519082-chr10:93556327..93558559,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228701	Chromatin interaction
ENSG00000272817	Chromatin interaction
ENSG00000174721	Chromatin interaction
ENSG00000107854	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10509636	0.88[CEU][hapmap]
rs10748566	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10786012	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10786014	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10881951	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10881958	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10881960	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10881966	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10881967	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10881969	0.80[AMR][1000 genomes]
rs10881971	0.88[CEU][hapmap];0.80[AMR][1000 genomes]
rs11186664	0.86[EUR][1000 genomes]
rs11186665	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11186667	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11186668	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11186722	0.80[JPT][hapmap]
rs12782935	0.80[AMR][1000 genomes]
rs1341263	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1418160	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1418162	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1539042	0.82[JPT][hapmap]
rs1592050	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1772189	0.82[JPT][hapmap]
rs1856927	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1857060	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1935029	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2050913	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2066275	0.88[CEU][hapmap];0.80[AMR][1000 genomes]
rs2153654	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2421692	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2901505	0.88[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3758499	0.88[CEU][hapmap]
rs3802650	0.85[JPT][hapmap]
rs4244929	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4933219	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61876144	0.80[ASN][1000 genomes]
rs7897499	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7918686	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7919141	0.81[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv975785	chr10:93501141-93525212	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10509634	TNKS2	cis	Skin Sun Exposed Lower leg	GTEx
rs10509634	TNKS2	cis	Nerve Tibial	GTEx
rs10509634	TNKS2	cis	Esophagus Muscularis	GTEx
rs10509634	TNKS2-AS1	cis	Heart Left Ventricle	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93516400-93520600	Weak transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links