Variant report

Variant	rs10509680
Chromosome Location	chr10:96734339-96734340
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10509677	0.84[EUR][1000 genomes]
rs10509678	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes]
rs1057910	1.00[ASW][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1057911	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11572106	1.00[ASW][hapmap]
rs1358894	0.98[EUR][1000 genomes]
rs1581735	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17110288	1.00[ASW][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17110310	0.88[EUR][1000 genomes]
rs17110314	0.88[EUR][1000 genomes]
rs17110317	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs17110321	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs17878382	1.00[ASW][hapmap];0.83[TSI][hapmap];0.88[EUR][1000 genomes]
rs17878627	0.86[EUR][1000 genomes]
rs17878673	0.95[GIH][hapmap];1.00[TSI][hapmap]
rs17885052	0.88[EUR][1000 genomes]
rs1853207	0.98[EUR][1000 genomes]
rs2093433	0.88[EUR][1000 genomes]
rs28371676	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28371682	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28399511	0.84[EUR][1000 genomes]
rs2901822	0.98[EUR][1000 genomes]
rs3758581	0.88[EUR][1000 genomes]
rs3862008	0.88[EUR][1000 genomes]
rs3862009	0.88[EUR][1000 genomes]
rs4304697	0.95[GIH][hapmap];0.91[TSI][hapmap]
rs55732648	0.84[EUR][1000 genomes]
rs55748010	0.84[EUR][1000 genomes]
rs60378628	0.98[EUR][1000 genomes]
rs61604699	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7088784	0.95[GIH][hapmap];1.00[TSI][hapmap]
rs733115	0.88[EUR][1000 genomes]
rs74150717	0.98[EUR][1000 genomes]
rs74154112	0.86[EUR][1000 genomes]
rs74154119	0.88[EUR][1000 genomes]
rs74154124	0.88[EUR][1000 genomes]
rs7901123	0.82[EUR][1000 genomes]
rs7910609	0.88[EUR][1000 genomes]
rs7915727	0.88[EUR][1000 genomes]
rs9325473	1.00[ASW][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332092	1.00[ASW][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332093	0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332098	1.00[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332108	1.00[ASW][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332137	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332141	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332147	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332157	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332160	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332169	1.00[ASW][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9332175	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9332177	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332183	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332187	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332188	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332214	0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332217	1.00[ASW][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332227	1.00[ASW][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332230	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9332238	0.89[CHD][hapmap]
rs9332245	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][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	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1035409	chr10:96495177-96832057	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv551962	chr10:96680265-96734339	Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv551963	chr10:96720262-96743943	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Warfarin maintenance dose	20833655	GWAS catalog

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10509680	C10orf129	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96718600-96737600	Weak transcription	Fetal Intestine Large	intestine
2	chr10:96730600-96738600	Strong transcription	Liver	Liver

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