Variant report

Variant	rs11572177
Chromosome Location	chr10:96797270-96797271
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11188123	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11188140	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11188145	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11492714	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11572093	0.82[CHD][hapmap];0.84[GIH][hapmap];0.83[MKK][hapmap]
rs11572139	0.81[GIH][hapmap]
rs12255990	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12355760	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12767162	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1341164	0.82[CHD][hapmap];0.84[GIH][hapmap];0.89[MKK][hapmap]
rs1934952	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1934957	0.82[CHD][hapmap];0.86[GIH][hapmap];0.88[MKK][hapmap]
rs1934974	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1934975	0.88[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.93[LWK][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1934982	0.82[CHD][hapmap];0.84[GIH][hapmap]
rs1934983	0.82[CHD][hapmap];0.81[GIH][hapmap];0.89[MKK][hapmap]
rs2185571	0.81[CHD][hapmap];0.84[GIH][hapmap]
rs2211267	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2901826	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6583966	0.89[EUR][1000 genomes]
rs6583967	0.82[CHD][hapmap];0.86[GIH][hapmap];0.88[MKK][hapmap]
rs7900980	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7901193	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7910170	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7917728	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv1050544	chr10:96766934-96814689	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv1044182	chr10:96783996-96814689	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	esv2761618	chr10:96784008-96814689	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats	TF binding region CpG island lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11572177	TNKS2	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96795000-96798200	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr10:96795600-96797400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr10:96796200-96797600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr10:96796400-96805400	Strong transcription	Liver	Liver
5	chr10:96796800-96797400	Enhancers	Primary hematopoietic stem cells	blood

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