Variant report

Variant	rs10858409
Chromosome Location	chr12:86693051-86693052
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10745408	0.96[ASN][1000 genomes]
rs10776954	0.90[EUR][1000 genomes]
rs10776955	0.94[ASN][1000 genomes]
rs10776957	0.96[ASN][1000 genomes]
rs10776958	0.87[EUR][1000 genomes]
rs10776959	0.96[ASN][1000 genomes]
rs10776960	0.85[EUR][1000 genomes]
rs10776961	0.80[ASN][1000 genomes]
rs10776967	0.86[EUR][1000 genomes]
rs10858411	0.88[EUR][1000 genomes]
rs10858417	0.85[EUR][1000 genomes]
rs10858420	0.86[EUR][1000 genomes]
rs11103912	0.81[ASN][1000 genomes]
rs11103946	0.84[EUR][1000 genomes]
rs12306280	0.80[ASN][1000 genomes]
rs1389294	0.88[EUR][1000 genomes]
rs1389295	0.88[EUR][1000 genomes]
rs1493413	0.88[EUR][1000 genomes]
rs1493414	0.87[EUR][1000 genomes]
rs1493415	0.87[ASN][1000 genomes]
rs1493417	0.86[EUR][1000 genomes]
rs1493418	0.88[EUR][1000 genomes]
rs1948448	0.87[ASN][1000 genomes]
rs2405930	0.80[ASN][1000 genomes]
rs2405933	0.84[ASN][1000 genomes]
rs2406115	0.82[ASN][1000 genomes]
rs2406116	0.96[ASN][1000 genomes]
rs2406117	0.96[ASN][1000 genomes]
rs2406118	0.96[ASN][1000 genomes]
rs2406119	0.96[ASN][1000 genomes]
rs2406120	0.87[EUR][1000 genomes]
rs2406121	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2406122	0.96[ASN][1000 genomes]
rs2406123	0.94[ASN][1000 genomes]
rs2452803	0.90[EUR][1000 genomes]
rs2452805	0.92[EUR][1000 genomes]
rs2452807	0.87[ASN][1000 genomes]
rs2452808	0.86[EUR][1000 genomes]
rs2465142	0.88[EUR][1000 genomes]
rs2465143	0.87[ASN][1000 genomes]
rs2465144	0.87[ASN][1000 genomes]
rs2465145	0.90[EUR][1000 genomes]
rs2465147	0.87[ASN][1000 genomes]
rs2465148	0.90[EUR][1000 genomes]
rs2471567	0.88[EUR][1000 genomes]
rs2471568	0.87[ASN][1000 genomes]
rs2471569	0.87[ASN][1000 genomes]
rs2471570	0.87[ASN][1000 genomes]
rs4265650	0.93[ASN][1000 genomes]
rs4329741	0.90[EUR][1000 genomes]
rs4334094	0.96[ASN][1000 genomes]
rs4503614	0.96[ASN][1000 genomes]
rs4628748	0.80[ASN][1000 genomes]
rs6538031	0.96[ASN][1000 genomes]
rs6538032	0.96[ASN][1000 genomes]
rs7134946	0.91[ASN][1000 genomes]
rs7135177	0.96[ASN][1000 genomes]
rs7135733	0.96[ASN][1000 genomes]
rs7135741	0.94[ASN][1000 genomes]
rs7303642	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7310186	0.93[ASN][1000 genomes]
rs7953494	0.90[EUR][1000 genomes]
rs7954833	0.86[EUR][1000 genomes]
rs7963957	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7966656	0.87[EUR][1000 genomes]
rs7972484	0.93[ASN][1000 genomes]
rs9919783	0.82[ASN][1000 genomes]
rs9919793	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049179	chr12:86056376-86799188	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv2761759	chr12:86415936-86747726	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv518059	chr12:86416212-86747726	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1041397	chr12:86438607-86737558	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1053087	chr12:86569126-86733418	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv541564	chr12:86569126-86733418	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1037003	chr12:86610040-86798121	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1045386	chr12:86616015-86733418	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv541565	chr12:86616015-86733418	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	esv1843214	chr12:86673989-86703959	Weak transcription Enhancers ZNF genes & repeats Active TSS	n/a	n/a	inside rSNPs	diseases
11	esv1850061	chr12:86673989-86703959	ZNF genes & repeats Enhancers Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
12	nsv802	chr12:86683758-86723684	Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	esv3378364	chr12:86690521-86695319	Enhancers Weak transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:86690600-86698200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr12:86692600-86693800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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