Variant report

Variant	rs12772990
Chromosome Location	chr10:55259557-55259558
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 157 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:144)

rs_ID	r²[population]
rs11003641	0.82[AFR][1000 genomes]
rs11003642	0.82[AFR][1000 genomes]
rs11003643	0.86[AFR][1000 genomes]
rs11003657	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11812259	0.93[EUR][1000 genomes]
rs11812644	0.93[EUR][1000 genomes]
rs11812663	0.93[EUR][1000 genomes]
rs11813997	0.93[EUR][1000 genomes]
rs11814685	0.93[EUR][1000 genomes]
rs11816676	0.96[EUR][1000 genomes]
rs11817911	0.93[EUR][1000 genomes]
rs11818534	0.96[EUR][1000 genomes]
rs12762519	0.96[EUR][1000 genomes]
rs12762857	0.89[EUR][1000 genomes]
rs12763251	0.96[EUR][1000 genomes]
rs12763853	0.93[EUR][1000 genomes]
rs12764777	0.88[EUR][1000 genomes]
rs12766128	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12767042	0.91[EUR][1000 genomes]
rs12767051	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12767289	0.93[EUR][1000 genomes]
rs12768602	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12771089	0.96[EUR][1000 genomes]
rs12771423	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12771750	0.93[EUR][1000 genomes]
rs12771866	0.93[EUR][1000 genomes]
rs12772547	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12772572	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12772777	0.93[EUR][1000 genomes]
rs12776740	0.93[EUR][1000 genomes]
rs12778636	0.96[EUR][1000 genomes]
rs12779337	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12784700	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34038423	0.93[EUR][1000 genomes]
rs34071784	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34135641	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34216097	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34260847	0.93[EUR][1000 genomes]
rs34274587	0.95[EUR][1000 genomes]
rs34284453	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34345813	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34373500	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34433914	0.91[EUR][1000 genomes]
rs34476067	0.93[EUR][1000 genomes]
rs34517473	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34535347	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34633836	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs34640672	0.93[EUR][1000 genomes]
rs34751043	0.96[EUR][1000 genomes]
rs34824233	0.96[EUR][1000 genomes]
rs34847447	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34894185	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35066816	0.93[EUR][1000 genomes]
rs35082584	0.93[EUR][1000 genomes]
rs35090347	0.96[EUR][1000 genomes]
rs35096407	0.96[EUR][1000 genomes]
rs35160613	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs351819	0.97[EUR][1000 genomes]
rs351820	1.00[EUR][1000 genomes]
rs35186807	0.88[EUR][1000 genomes]
rs35206171	0.93[EUR][1000 genomes]
rs35317048	0.96[EUR][1000 genomes]
rs35604248	0.89[EUR][1000 genomes]
rs35609676	0.93[EUR][1000 genomes]
rs35635224	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35639921	0.93[EUR][1000 genomes]
rs35659760	0.96[EUR][1000 genomes]
rs35662065	0.95[EUR][1000 genomes]
rs35704741	0.96[EUR][1000 genomes]
rs35834597	0.96[EUR][1000 genomes]
rs35937746	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs36047711	0.95[EUR][1000 genomes]
rs36068349	0.96[EUR][1000 genomes]
rs58389486	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59911333	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66484271	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs66624849	0.96[EUR][1000 genomes]
rs66715040	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66778160	0.96[EUR][1000 genomes]
rs66825416	0.96[EUR][1000 genomes]
rs67035493	0.96[EUR][1000 genomes]
rs67254307	0.96[EUR][1000 genomes]
rs67398316	0.96[EUR][1000 genomes]
rs67524958	0.96[EUR][1000 genomes]
rs67606828	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67671940	0.93[EUR][1000 genomes]
rs67746475	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67779403	0.93[EUR][1000 genomes]
rs67805701	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs68130066	0.96[EUR][1000 genomes]
rs7069859	0.93[EUR][1000 genomes]
rs7070023	0.93[EUR][1000 genomes]
rs7070911	0.93[EUR][1000 genomes]
rs7072768	0.93[EUR][1000 genomes]
rs7073482	0.93[EUR][1000 genomes]
rs7073891	0.93[EUR][1000 genomes]
rs7081932	0.93[EUR][1000 genomes]
rs7082398	0.93[EUR][1000 genomes]
rs7083591	0.93[EUR][1000 genomes]
rs7084403	0.93[EUR][1000 genomes]
rs7084882	0.93[EUR][1000 genomes]
rs7085026	0.86[EUR][1000 genomes]
rs7086598	0.93[EUR][1000 genomes]
rs7086889	0.93[EUR][1000 genomes]
rs7087312	0.93[EUR][1000 genomes]
rs7090579	0.93[EUR][1000 genomes]
rs7100164	0.93[EUR][1000 genomes]
rs7100590	0.93[EUR][1000 genomes]
rs7101007	0.93[EUR][1000 genomes]
rs7101019	0.93[EUR][1000 genomes]
rs7101316	0.86[EUR][1000 genomes]
rs71490957	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71490966	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71490967	0.83[EUR][1000 genomes]
rs71490968	0.91[EUR][1000 genomes]
rs71502020	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71502021	0.95[EUR][1000 genomes]
rs73231800	0.96[EUR][1000 genomes]
rs73233405	0.96[EUR][1000 genomes]
rs73233406	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73233409	0.93[EUR][1000 genomes]
rs73233410	0.96[EUR][1000 genomes]
rs73233412	0.96[EUR][1000 genomes]
rs73233413	0.96[EUR][1000 genomes]
rs73233414	0.96[EUR][1000 genomes]
rs73233416	0.81[EUR][1000 genomes]
rs73233419	0.91[EUR][1000 genomes]
rs73233420	0.96[EUR][1000 genomes]
rs73233421	0.96[EUR][1000 genomes]
rs73237596	0.90[EUR][1000 genomes]
rs73239887	0.93[EUR][1000 genomes]
rs73347344	0.87[AFR][1000 genomes]
rs73347346	0.87[AFR][1000 genomes]
rs73347349	0.87[AFR][1000 genomes]
rs73347350	0.87[AFR][1000 genomes]
rs73347353	0.87[AFR][1000 genomes]
rs73347357	0.90[AFR][1000 genomes]
rs73347374	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73356752	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7894670	0.85[AFR][1000 genomes]
rs7914118	0.82[AFR][1000 genomes]
rs7914281	0.81[AFR][1000 genomes]
rs7914402	0.81[AFR][1000 genomes]
rs7919179	0.93[EUR][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	esv2752952	chr10:54900994-55497594	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1041908	chr10:55003164-55283251	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv540629	chr10:55003164-55283251	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1040943	chr10:55040577-55279797	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv540630	chr10:55040577-55279797	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1037480	chr10:55102814-55289571	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv2755889	chr10:55150173-55278481	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1048399	chr10:55151470-55313737	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv1044282	chr10:55186501-55516392	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv540631	chr10:55186501-55516392	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv1043501	chr10:55186701-55516253	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv540632	chr10:55186701-55516253	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv1050323	chr10:55190079-55546575	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:55259000-55259800	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:55259000-55261000	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
3	chr10:55259200-55260000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
4	chr10:55259200-55261000	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
5	chr10:55259400-55259800	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:55259400-55259800	ZNF genes & repeats	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr10:55259400-55260400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
8	chr10:55259400-55260400	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
9	chr10:55259400-55261000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
10	chr10:55259400-55261000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
11	chr10:55259400-55261000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
12	chr10:55259400-55272600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

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