Variant report

Variant	rs10029372
Chromosome Location	chr4:98859002-98859003
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 197 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:180)

rs_ID	r²[population]
rs10000573	0.87[EUR][1000 genomes]
rs10004827	0.88[EUR][1000 genomes]
rs10005118	0.88[EUR][1000 genomes]
rs10005120	0.88[EUR][1000 genomes]
rs10007663	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10007872	0.92[EUR][1000 genomes]
rs10012167	0.89[EUR][1000 genomes]
rs10014284	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10017530	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10018654	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10021044	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10025364	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10025651	0.83[EUR][1000 genomes]
rs10033994	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10034619	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10049627	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10050008	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11097582	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1111541	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11721453	0.89[EUR][1000 genomes]
rs11726758	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11727653	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11729596	0.89[EUR][1000 genomes]
rs11735105	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11932942	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12163918	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13102369	0.89[EUR][1000 genomes]
rs13108535	0.89[EUR][1000 genomes]
rs13110418	0.89[EUR][1000 genomes]
rs13115356	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13118892	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13118945	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13121558	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13121766	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13122456	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13122897	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13124904	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13125930	0.86[ASN][1000 genomes]
rs13127542	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13130923	0.89[EUR][1000 genomes]
rs13131962	0.89[EUR][1000 genomes]
rs13132395	0.87[EUR][1000 genomes]
rs13136930	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13137152	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13137808	0.89[EUR][1000 genomes]
rs13137859	0.89[EUR][1000 genomes]
rs13138051	0.89[EUR][1000 genomes]
rs13138059	0.88[EUR][1000 genomes]
rs13138063	0.89[EUR][1000 genomes]
rs13138438	0.89[EUR][1000 genomes]
rs13140514	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13146909	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13147768	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13148324	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1426661	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1426666	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1527516	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17026973	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17027058	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17484890	0.92[EUR][1000 genomes]
rs17484966	0.90[EUR][1000 genomes]
rs17549003	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17550735	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17558151	0.90[EUR][1000 genomes]
rs17558193	0.89[EUR][1000 genomes]
rs1834647	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1834648	0.87[EUR][1000 genomes]
rs1852545	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1869897	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2114426	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2167892	0.89[EUR][1000 genomes]
rs2839836	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28415600	0.90[EUR][1000 genomes]
rs28417716	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28619044	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28622458	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2865981	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2865982	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28761309	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28791018	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2903154	0.90[EUR][1000 genomes]
rs34164616	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34313689	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34318449	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34528953	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34613258	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34870112	0.89[EUR][1000 genomes]
rs34892904	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34943050	0.82[EUR][1000 genomes]
rs35195511	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35235971	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35491210	0.92[EUR][1000 genomes]
rs35531558	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35644814	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35685312	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35721906	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35752787	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35865860	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35951881	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs36028444	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3846443	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3846444	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3846445	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3852122	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3852123	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3857216	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3857217	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3896704	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3911282	0.89[EUR][1000 genomes]
rs4334758	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4502686	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4699324	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4699595	0.90[EUR][1000 genomes]
rs4699601	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4699602	0.82[EUR][1000 genomes]
rs58367603	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs59751489	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60007031	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60028147	0.81[EUR][1000 genomes]
rs60391193	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60994860	0.89[EUR][1000 genomes]
rs62318502	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62318503	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62318504	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62318642	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62318644	0.85[ASN][1000 genomes]
rs62321592	0.88[EUR][1000 genomes]
rs62321597	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62321598	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6532721	0.88[EUR][1000 genomes]
rs6817645	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6818045	0.89[EUR][1000 genomes]
rs6819047	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6827516	0.93[EUR][1000 genomes]
rs6829567	0.89[EUR][1000 genomes]
rs6831925	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6839277	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6840669	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6843777	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6848786	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6853266	0.88[EUR][1000 genomes]
rs6853608	0.89[EUR][1000 genomes]
rs6854902	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6854919	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7377018	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7657179	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7659006	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7659593	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7659801	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7663438	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7663661	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7663924	0.89[EUR][1000 genomes]
rs7664051	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7664169	0.86[EUR][1000 genomes]
rs7664305	0.89[EUR][1000 genomes]
rs7664340	0.90[EUR][1000 genomes]
rs7672127	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7672720	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7672901	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7674095	0.89[EUR][1000 genomes]
rs7674407	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7680909	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7682991	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7687958	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7691433	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7691864	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7696686	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7696715	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7697315	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs880470	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs921521	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9992257	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9992281	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9992360	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9992391	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9992470	0.82[EUR][1000 genomes]
rs9994346	0.88[EUR][1000 genomes]
rs9996098	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9998803	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9999200	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879643	chr4:98317295-99065480	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv868914	chr4:98416047-98969285	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1012612	chr4:98433491-98949873	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1002098	chr4:98501337-99086320	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537193	chr4:98501337-99086320	ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv529623	chr4:98501338-99460166	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv879648	chr4:98547717-99104879	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv1000011	chr4:98562308-99101692	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv879649	chr4:98652600-98873667	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv932060	chr4:98696832-98902498	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1000956	chr4:98732458-99178588	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
12	nsv999087	chr4:98737003-98860303	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv594937	chr4:98748299-98866902	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv530387	chr4:98757752-98922248	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	nsv1005567	chr4:98779722-99031934	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
16	nsv995045	chr4:98802844-99022958	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
17	esv11264	chr4:98841655-99028842	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:98856200-98863600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:98859000-98859600	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell

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