Variant report

Variant	rs4935409
Chromosome Location	chr10:55012295-55012296
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 136 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:127)

rs_ID	r²[population]
rs1002409	0.89[EUR][1000 genomes]
rs10508992	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10824952	0.87[EUR][1000 genomes]
rs10824954	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10824955	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10824956	0.85[EUR][1000 genomes]
rs10824957	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10824958	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10824959	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10824964	0.84[EUR][1000 genomes]
rs10824966	0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10824967	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10824968	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10824969	0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10824970	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10824972	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10824996	0.88[EUR][1000 genomes]
rs11003469	0.85[EUR][1000 genomes]
rs11003470	0.87[EUR][1000 genomes]
rs11003475	0.81[EUR][1000 genomes]
rs11003479	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11003481	0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11003485	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11003490	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11003491	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11003492	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11003496	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11003500	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11003513	0.91[EUR][1000 genomes]
rs11003515	0.91[EUR][1000 genomes]
rs11003538	0.88[EUR][1000 genomes]
rs11003539	0.88[EUR][1000 genomes]
rs11003540	0.89[EUR][1000 genomes]
rs11003541	0.88[EUR][1000 genomes]
rs11003542	0.89[EUR][1000 genomes]
rs11003543	0.88[EUR][1000 genomes]
rs11003544	0.88[EUR][1000 genomes]
rs11003545	0.88[EUR][1000 genomes]
rs11003546	0.89[EUR][1000 genomes]
rs11003547	0.89[EUR][1000 genomes]
rs11003548	0.88[EUR][1000 genomes]
rs11003550	0.88[EUR][1000 genomes]
rs11003552	0.87[EUR][1000 genomes]
rs11003553	0.88[EUR][1000 genomes]
rs11003554	0.89[EUR][1000 genomes]
rs11003556	0.89[EUR][1000 genomes]
rs11003557	0.88[EUR][1000 genomes]
rs11003558	0.88[EUR][1000 genomes]
rs11003559	0.89[EUR][1000 genomes]
rs11003560	0.89[EUR][1000 genomes]
rs11003561	0.89[EUR][1000 genomes]
rs11003562	0.89[EUR][1000 genomes]
rs11003563	0.89[EUR][1000 genomes]
rs11003564	0.88[EUR][1000 genomes]
rs11003565	0.89[EUR][1000 genomes]
rs11003566	0.88[EUR][1000 genomes]
rs11003567	0.89[EUR][1000 genomes]
rs11003569	0.89[EUR][1000 genomes]
rs11003573	0.89[EUR][1000 genomes]
rs11003577	0.88[EUR][1000 genomes]
rs12219998	0.88[EUR][1000 genomes]
rs12220148	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12570827	0.88[EUR][1000 genomes]
rs12571947	0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12572208	0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12572462	0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12573223	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12761387	0.89[EUR][1000 genomes]
rs12762352	0.92[EUR][1000 genomes]
rs12762475	0.89[EUR][1000 genomes]
rs12774402	0.89[EUR][1000 genomes]
rs12775366	0.89[EUR][1000 genomes]
rs12776870	0.89[EUR][1000 genomes]
rs12777404	0.87[EUR][1000 genomes]
rs12777584	0.89[EUR][1000 genomes]
rs12777606	0.88[EUR][1000 genomes]
rs12777791	0.88[EUR][1000 genomes]
rs12778883	0.91[EUR][1000 genomes]
rs12781547	0.88[EUR][1000 genomes]
rs16913753	0.89[EUR][1000 genomes]
rs16913756	0.89[EUR][1000 genomes]
rs16937295	0.81[EUR][1000 genomes]
rs16937381	0.88[EUR][1000 genomes]
rs16937382	0.90[EUR][1000 genomes]
rs16937385	0.89[EUR][1000 genomes]
rs16937391	0.89[EUR][1000 genomes]
rs1871071	0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1903948	0.81[EUR][1000 genomes]
rs1903962	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1903963	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2384181	0.92[EUR][1000 genomes]
rs2384182	0.91[EUR][1000 genomes]
rs2384188	0.89[EUR][1000 genomes]
rs2384195	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2384201	0.89[EUR][1000 genomes]
rs2891446	0.88[EUR][1000 genomes]
rs2891448	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2891449	0.89[EUR][1000 genomes]
rs34512860	0.88[EUR][1000 genomes]
rs34868341	0.87[EUR][1000 genomes]
rs35067899	0.89[EUR][1000 genomes]
rs35121462	0.88[EUR][1000 genomes]
rs35279234	0.89[EUR][1000 genomes]
rs35364536	0.88[EUR][1000 genomes]
rs35520722	0.89[EUR][1000 genomes]
rs35571202	0.87[EUR][1000 genomes]
rs35919738	0.87[EUR][1000 genomes]
rs4007302	0.88[EUR][1000 genomes]
rs4314973	0.89[EUR][1000 genomes]
rs4317893	0.89[EUR][1000 genomes]
rs4362063	0.89[EUR][1000 genomes]
rs4611109	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4638216	0.89[EUR][1000 genomes]
rs4935068	0.87[EUR][1000 genomes]
rs4935408	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4935420	0.88[EUR][1000 genomes]
rs4935421	0.88[EUR][1000 genomes]
rs4935422	0.89[EUR][1000 genomes]
rs66618328	0.89[EUR][1000 genomes]
rs66697215	0.86[EUR][1000 genomes]
rs67439024	0.88[EUR][1000 genomes]
rs67510624	0.88[EUR][1000 genomes]
rs68140745	0.88[EUR][1000 genomes]
rs7095212	0.91[EUR][1000 genomes]
rs7893466	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9633602	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9633603	0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 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	nsv831878	chr10:54902106-55085586	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1054987	chr10:54976344-55097467	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv2760139	chr10:54976356-55097479	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv515785	chr10:54981512-55093531	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1053758	chr10:54993785-55046152	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv1041044	chr10:54998015-55043199	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	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
9	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

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:55012000-55013800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
2	chr10:55012000-55014400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
3	chr10:55012200-55013600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:55012200-55014400	ZNF genes & repeats	H1 Cell Line	embryonic stem cell

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