Variant report

Variant	rs3136535
Chromosome Location	chr3:46409113-46409114
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:46408828-46409159	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
CCR5	TF binding region

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1140865	0.92[EUR][1000 genomes]
rs11574428	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11574429	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11574434	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11574435	0.84[EUR][1000 genomes]
rs11575821	0.92[EUR][1000 genomes]
rs17285324	0.89[AMR][1000 genomes]
rs2157061	0.92[EUR][1000 genomes]
rs2157062	0.90[EUR][1000 genomes]
rs2856758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3092960	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34291293	0.91[EUR][1000 genomes]
rs34445878	0.92[EUR][1000 genomes]
rs34971514	0.91[EUR][1000 genomes]
rs35388950	0.91[EUR][1000 genomes]
rs41490645	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs57093591	0.94[EUR][1000 genomes]
rs60020651	0.83[EUR][1000 genomes]
rs6770674	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6782522	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6787972	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6791789	0.91[EUR][1000 genomes]
rs6798291	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6808835	0.92[EUR][1000 genomes]
rs762790	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7652037	0.92[EUR][1000 genomes]
rs916094	0.91[EUR][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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv3323840	chr3:46352348-46497196	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3389382	chr3:46352798-46496696	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 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	chr3:46396000-46422000	Weak transcription	Lung	lung
2	chr3:46403800-46409600	Weak transcription	Fetal Intestine Large	intestine
3	chr3:46404000-46409400	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr3:46404000-46409400	Weak transcription	Fetal Thymus	thymus
5	chr3:46404200-46409400	Weak transcription	Primary B cells from peripheral blood	blood
6	chr3:46404400-46409200	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr3:46404400-46409400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr3:46404400-46412400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr3:46404400-46422200	Weak transcription	Thymus	Thymus
10	chr3:46404400-46424600	Weak transcription	Spleen	Spleen
11	chr3:46404600-46409200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr3:46404600-46411200	Weak transcription	Small Intestine	intestine
13	chr3:46407000-46411200	Enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr3:46407000-46412200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr3:46407200-46409800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr3:46408000-46409400	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr3:46408000-46409400	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr3:46408400-46409400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr3:46408400-46412400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr3:46409000-46409600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr3:46409000-46410200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
22	chr3:46409000-46410200	Enhancers	HepG2	liver
23	chr3:46409000-46412200	Enhancers	Primary T cells fromperipheralblood	blood

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