Variant report

Variant	rs1899564
Chromosome Location	chr4:143653822-143653823
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:143651955..143654079-chr4:143655734..143658142,2	MCF-7	breast:
2	chr4:143653633..143656587-chr4:143659661..143662244,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10023146	1.00[ASN][1000 genomes]
rs10034956	1.00[ASN][1000 genomes]
rs10049507	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11100756	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11725795	1.00[ASN][1000 genomes]
rs13103261	0.93[ASN][1000 genomes]
rs13105531	0.93[ASN][1000 genomes]
rs13106530	0.84[EUR][1000 genomes]
rs13108947	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13112871	1.00[ASN][1000 genomes]
rs13115869	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13116732	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13132001	0.87[ASN][1000 genomes]
rs13133396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13135210	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs13140998	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1373033	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1373664	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1441412	0.93[ASN][1000 genomes]
rs1441416	1.00[ASN][1000 genomes]
rs2322814	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28367408	0.93[ASN][1000 genomes]
rs28410519	0.93[ASN][1000 genomes]
rs28421948	0.93[ASN][1000 genomes]
rs28453834	0.93[ASN][1000 genomes]
rs28462985	0.93[ASN][1000 genomes]
rs28508323	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28533753	0.93[ASN][1000 genomes]
rs28608029	1.00[ASN][1000 genomes]
rs28665985	0.93[ASN][1000 genomes]
rs28667040	0.93[ASN][1000 genomes]
rs28685292	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34032529	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34241470	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34412123	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34611963	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34804364	0.93[ASN][1000 genomes]
rs35053070	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35416729	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35838997	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35918867	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36042265	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62331921	0.93[ASN][1000 genomes]
rs62331922	0.93[ASN][1000 genomes]
rs62331933	0.93[ASN][1000 genomes]
rs62331934	0.93[ASN][1000 genomes]
rs7662067	0.93[ASN][1000 genomes]
rs986081	1.00[ASN][1000 genomes]
rs9994239	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9994268	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830101	chr4:143518810-143684392	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv595606	chr4:143631691-143729595	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv880174	chr4:143639498-143848024	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143642800-143664200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:143650600-143655800	Weak transcription	Thymus	Thymus
3	chr4:143651000-143664400	Weak transcription	Aorta	Aorta
4	chr4:143652800-143654200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr4:143653200-143664400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr4:143653600-143654400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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