Variant report

Variant	rs58410196
Chromosome Location	chr1:186584624-186584625
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	chr1:186582831..186585568-chr1:186585977..186588790,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10489394	0.87[AMR][1000 genomes]
rs10489395	0.87[AMR][1000 genomes]
rs12239085	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12239322	1.00[AMR][1000 genomes]
rs12239327	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13374147	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13374242	0.87[AMR][1000 genomes]
rs13376114	0.87[AMR][1000 genomes]
rs13376658	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16825448	0.87[AMR][1000 genomes]
rs16825457	0.87[AMR][1000 genomes]
rs1929094	0.87[AMR][1000 genomes]
rs3934201	0.87[AMR][1000 genomes]
rs56158125	1.00[AMR][1000 genomes]
rs56888492	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs57020506	1.00[AMR][1000 genomes]
rs57488115	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58300321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58336827	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60957652	0.87[AMR][1000 genomes]
rs6425029	0.87[AMR][1000 genomes]
rs6673816	0.87[AMR][1000 genomes]
rs6679283	1.00[AMR][1000 genomes]
rs6688055	0.87[AMR][1000 genomes]
rs7355201	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7355203	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7530502	0.87[AMR][1000 genomes]
rs9803910	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004481	chr1:186095854-186750968	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv535223	chr1:186095854-186750968	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv832059	chr1:186464932-186639125	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2762854	chr1:186547101-186847574	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv872590	chr1:186557453-187500338	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:186575600-186587400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr1:186583200-186584800	Enhancers	Primary T cells from cord blood	blood
3	chr1:186583600-186585200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
4	chr1:186583800-186584800	Enhancers	Fetal Thymus	thymus
5	chr1:186584000-186584800	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr1:186584000-186585400	Enhancers	Primary B cells from cord blood	blood
7	chr1:186584000-186587000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr1:186584200-186587000	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr1:186584200-186587000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr1:186584400-186587000	Weak transcription	Dnd41	blood
11	chr1:186584400-186587000	Weak transcription	GM12878-XiMat	blood
12	chr1:186584400-186587400	Weak transcription	HMEC	breast
13	chr1:186584600-186586800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr1:186584600-186586800	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr1:186584600-186587000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr1:186584600-186587000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr1:186584600-186587000	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr1:186584600-186587000	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr1:186584600-186587000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr1:186584600-186587200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr1:186584600-186587200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr1:186584600-186587200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr1:186584600-186587200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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