Variant report

Variant	rs59399028
Chromosome Location	chr4:99157151-99157152
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	chr4:99153861..99155781-chr4:99155970..99158168,2	K562	blood:
2	chr4:99157087..99159312-chr4:99180098..99182981,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138698	Chromatin interaction
ENSG00000214559	Chromatin interaction

Extended variants
information (count: 124 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:110)

rs_ID	r²[population]
rs55634286	1.00[AMR][1000 genomes]
rs55699140	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55913300	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55942043	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55950397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55987744	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56022708	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56030651	1.00[AMR][1000 genomes]
rs56032135	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56038362	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56075971	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56081533	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56110006	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56128838	1.00[AMR][1000 genomes]
rs56199712	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56262026	1.00[AMR][1000 genomes]
rs56743102	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56813590	1.00[AMR][1000 genomes]
rs57012386	1.00[AMR][1000 genomes]
rs57375402	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57678573	1.00[AMR][1000 genomes]
rs57911361	1.00[AMR][1000 genomes]
rs58507370	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58579740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59911323	1.00[AMR][1000 genomes]
rs59980453	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60107453	1.00[AMR][1000 genomes]
rs60148186	1.00[AMR][1000 genomes]
rs60218968	1.00[AMR][1000 genomes]
rs60460868	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60467192	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60473964	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60502057	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60551470	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60883587	1.00[AMR][1000 genomes]
rs60969041	1.00[AMR][1000 genomes]
rs60998950	1.00[AMR][1000 genomes]
rs61537932	1.00[AMR][1000 genomes]
rs6814760	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832148	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832166	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832168	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832169	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832170	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832171	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832172	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832174	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832175	1.00[AMR][1000 genomes]
rs73832177	1.00[AMR][1000 genomes]
rs73832178	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832179	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832180	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832181	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832185	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832186	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832187	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832188	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832190	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832194	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832195	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73832197	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832198	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832199	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832202	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73832303	1.00[AMR][1000 genomes]
rs73832304	1.00[AMR][1000 genomes]
rs73832310	1.00[AMR][1000 genomes]
rs73834405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834408	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834410	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834415	1.00[AMR][1000 genomes]
rs73834418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834420	1.00[AMR][1000 genomes]
rs73834421	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834422	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834428	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73834430	1.00[AMR][1000 genomes]
rs73834432	1.00[AMR][1000 genomes]
rs73834433	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73834440	1.00[AMR][1000 genomes]
rs73834441	1.00[AMR][1000 genomes]
rs73834442	1.00[AMR][1000 genomes]
rs73834446	1.00[AMR][1000 genomes]
rs73834447	1.00[AMR][1000 genomes]
rs73834448	1.00[AMR][1000 genomes]
rs73834449	1.00[AMR][1000 genomes]
rs73834450	1.00[AMR][1000 genomes]
rs73834451	1.00[AMR][1000 genomes]
rs73834457	1.00[AMR][1000 genomes]
rs73834458	1.00[AMR][1000 genomes]
rs73834459	1.00[AMR][1000 genomes]
rs73834460	1.00[AMR][1000 genomes]
rs73834462	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73834463	1.00[AMR][1000 genomes]
rs73834464	1.00[AMR][1000 genomes]
rs73834465	1.00[AMR][1000 genomes]
rs73834469	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73834472	1.00[AMR][1000 genomes]
rs73834473	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73834477	1.00[AMR][1000 genomes]
rs73834483	1.00[AMR][1000 genomes]
rs73834484	1.00[AMR][1000 genomes]
rs73834486	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73834488	1.00[AMR][1000 genomes]
rs73834491	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 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	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
6	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
7	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
8	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
9	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
10	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
11	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
12	nsv879652	chr4:99125659-99303633	Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
13	nsv528127	chr4:99146436-99229839	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
14	nsv879653	chr4:99152631-99260423	Enhancers Active TSS Flanking Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 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	chr4:99153800-99163000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:99154400-99158000	Weak transcription	Dnd41	blood

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