Variant report

Variant	rs3136536
Chromosome Location	chr3:46409636-46409637
allele	C/T
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	RCOR1	chr3:46409541-46409733	HepG2	liver:	n/a	n/a
2	FOXA1	chr3:46409190-46409726	HepG2	liver:	n/a	n/a
3	POLR2A	chr3:46409409-46409694	MCF10A-Er-Src	breast:	n/a	n/a
4	FOXA1	chr3:46409235-46409685	HepG2	liver:	n/a	n/a
5	ARID3A	chr3:46409471-46409651	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46317898..46318782-chr3:46409428..46410356,4	MCF-7	breast:
2	chr3:46334510..46335470-chr3:46409524..46410676,4	MCF-7	breast:

Variant related genes	Relation type
CCR5	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11574431	1.00[EUR][1000 genomes]
rs11574437	1.00[EUR][1000 genomes]
rs11574440	1.00[EUR][1000 genomes]
rs11574441	1.00[EUR][1000 genomes]
rs11575814	1.00[EUR][1000 genomes]
rs11575817	1.00[EUR][1000 genomes]
rs11575818	1.00[EUR][1000 genomes]
rs11575822	1.00[EUR][1000 genomes]
rs13327723	1.00[EUR][1000 genomes]
rs17141003	1.00[EUR][1000 genomes]
rs17141076	1.00[EUR][1000 genomes]
rs17842821	1.00[EUR][1000 genomes]
rs17842822	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2373253	1.00[EUR][1000 genomes]
rs3176763	1.00[EUR][1000 genomes]
rs3181037	1.00[EUR][1000 genomes]
rs35212534	1.00[EUR][1000 genomes]
rs3918370	1.00[EUR][1000 genomes]
rs41395345	1.00[EUR][1000 genomes]
rs41495153	1.00[EUR][1000 genomes]
rs55951695	1.00[EUR][1000 genomes]
rs56062522	1.00[EUR][1000 genomes]
rs57509359	1.00[EUR][1000 genomes]
rs57761566	1.00[EUR][1000 genomes]
rs58966767	1.00[EUR][1000 genomes]
rs59998539	1.00[EUR][1000 genomes]
rs60350631	1.00[EUR][1000 genomes]
rs61737000	1.00[EUR][1000 genomes]
rs6441969	1.00[EUR][1000 genomes]
rs6770833	1.00[EUR][1000 genomes]
rs6798819	1.00[EUR][1000 genomes]
rs6801203	1.00[EUR][1000 genomes]
rs723577	1.00[EUR][1000 genomes]
rs73830784	1.00[EUR][1000 genomes]
rs73831107	1.00[EUR][1000 genomes]
rs7611447	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7614209	1.00[EUR][1000 genomes]
rs7638702	1.00[EUR][1000 genomes]
rs7640084	1.00[EUR][1000 genomes]
rs7640708	1.00[EUR][1000 genomes]
rs7650273	1.00[EUR][1000 genomes]
rs7652954	1.00[EUR][1000 genomes]
rs9282632	1.00[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:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46396000-46422000	Weak transcription	Lung	lung
2	chr3:46404400-46412400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr3:46404400-46422200	Weak transcription	Thymus	Thymus
4	chr3:46404400-46424600	Weak transcription	Spleen	Spleen
5	chr3:46404600-46411200	Weak transcription	Small Intestine	intestine
6	chr3:46407000-46411200	Enhancers	Primary T helper naive cells from peripheral blood	blood
7	chr3:46407000-46412200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:46407200-46409800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:46408400-46412400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr3:46409000-46410200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr3:46409000-46410200	Enhancers	HepG2	liver
12	chr3:46409000-46412200	Enhancers	Primary T cells fromperipheralblood	blood
13	chr3:46409200-46412000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr3:46409200-46413200	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr3:46409400-46410000	Enhancers	Fetal Intestine Small	intestine
16	chr3:46409400-46410200	Enhancers	Duodenum Mucosa	Duodenum
17	chr3:46409400-46410200	Enhancers	Placenta	Placenta
18	chr3:46409400-46410200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
19	chr3:46409400-46410800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
20	chr3:46409400-46410800	Enhancers	GM12878-XiMat	blood
21	chr3:46409400-46411200	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr3:46409400-46411400	Enhancers	Primary B cells from peripheral blood	blood
23	chr3:46409400-46412000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr3:46409400-46412200	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr3:46409400-46414200	Enhancers	Fetal Thymus	thymus
26	chr3:46409400-46418600	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr3:46409600-46410000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
28	chr3:46409600-46410000	Enhancers	Brain Hippocampus Middle	brain
29	chr3:46409600-46410200	Enhancers	Fetal Intestine Large	intestine
30	chr3:46409600-46410600	Enhancers	Fetal Lung	lung
31	chr3:46409600-46412800	Enhancers	Primary T cells from cord blood	blood
32	chr3:46409600-46417200	Enhancers	Dnd41	blood

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