Variant report

Variant	rs55993060
Chromosome Location	chr4:99119426-99119427
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:99118953..99122803-chr4:99123376..99126878,4	MCF-7	breast:

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10003061	0.87[EUR][1000 genomes]
rs10003496	0.87[EUR][1000 genomes]
rs10006734	0.87[EUR][1000 genomes]
rs10010260	0.87[EUR][1000 genomes]
rs10013248	0.87[EUR][1000 genomes]
rs10015953	0.87[EUR][1000 genomes]
rs10017827	1.00[EUR][1000 genomes]
rs10022073	0.87[EUR][1000 genomes]
rs10025311	0.87[EUR][1000 genomes]
rs10026222	0.87[EUR][1000 genomes]
rs10029895	0.87[EUR][1000 genomes]
rs10032785	0.87[EUR][1000 genomes]
rs10034649	0.87[EUR][1000 genomes]
rs10212883	0.87[EUR][1000 genomes]
rs1024127	0.87[EUR][1000 genomes]
rs10470953	0.87[EUR][1000 genomes]
rs12331722	0.87[EUR][1000 genomes]
rs13353633	0.87[EUR][1000 genomes]
rs16996571	0.87[EUR][1000 genomes]
rs17027340	1.00[EUR][1000 genomes]
rs17027393	0.87[EUR][1000 genomes]
rs17027526	0.87[EUR][1000 genomes]
rs17027538	0.87[EUR][1000 genomes]
rs17027559	0.87[EUR][1000 genomes]
rs28373747	0.87[EUR][1000 genomes]
rs28438716	0.87[EUR][1000 genomes]
rs28446845	0.87[EUR][1000 genomes]
rs28451188	0.87[EUR][1000 genomes]
rs28455818	0.87[EUR][1000 genomes]
rs28459325	0.87[EUR][1000 genomes]
rs28464398	0.87[EUR][1000 genomes]
rs28472340	0.87[EUR][1000 genomes]
rs28494643	0.87[EUR][1000 genomes]
rs28529663	0.87[EUR][1000 genomes]
rs28558542	0.87[EUR][1000 genomes]
rs28564255	0.87[EUR][1000 genomes]
rs28589745	0.87[EUR][1000 genomes]
rs28647503	1.00[EUR][1000 genomes]
rs28651612	1.00[EUR][1000 genomes]
rs28664868	0.87[EUR][1000 genomes]
rs28731135	0.87[EUR][1000 genomes]
rs28786730	0.87[EUR][1000 genomes]
rs28806635	0.87[EUR][1000 genomes]
rs28807427	0.87[EUR][1000 genomes]
rs28840158	0.87[EUR][1000 genomes]
rs28883979	0.87[EUR][1000 genomes]
rs28893208	0.87[EUR][1000 genomes]
rs41275691	0.87[EUR][1000 genomes]
rs41275693	0.87[EUR][1000 genomes]
rs41525749	0.87[EUR][1000 genomes]
rs56805018	0.87[EUR][1000 genomes]
rs58954707	0.89[EUR][1000 genomes]
rs60281573	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60544326	0.87[EUR][1000 genomes]
rs60638903	1.00[EUR][1000 genomes]
rs61485715	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6834495	0.87[EUR][1000 genomes]
rs73832142	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832145	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832149	1.00[EUR][1000 genomes]
rs73832156	1.00[EUR][1000 genomes]
rs73834403	0.87[EUR][1000 genomes]
rs73834404	0.87[EUR][1000 genomes]
rs73834429	0.87[EUR][1000 genomes]
rs73834444	0.87[EUR][1000 genomes]
rs73834475	0.87[EUR][1000 genomes]
rs73834479	0.87[EUR][1000 genomes]
rs7658383	0.87[EUR][1000 genomes]
rs7685754	0.89[EUR][1000 genomes]
rs9307226	0.87[EUR][1000 genomes]
rs9991668	0.87[EUR][1000 genomes]
rs9994467	0.87[EUR][1000 genomes]
rs9995184	0.87[EUR][1000 genomes]
rs9997337	0.87[EUR][1000 genomes]
rs9997973	0.87[EUR][1000 genomes]
rs9998801	0.87[EUR][1000 genomes]
rs9999779	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	nsv1001570	chr4:98976239-99239838	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv879650	chr4:99057457-99172232	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv998270	chr4:99063275-99120404	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv461595	chr4:99065480-99172175	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv594939	chr4:99065480-99172175	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv470061	chr4:99078105-99160699	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv1004616	chr4:99085875-99308901	Genic enhancers Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
10	esv2763801	chr4:99094892-99413853	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	esv2754250	chr4:99094922-99527122	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
12	nsv879651	chr4:99105055-99441349	Weak transcription Genic enhancers Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 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	chr4:99118800-99122600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr4:99119000-99119800	ZNF genes & repeats	Primary B cells from peripheral blood	blood

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