Variant report

Variant	rs336561
Chromosome Location	chr3:161125305-161125306
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:161009100..161011704-chr3:161125007..161126945,2	MCF-7	breast:
2	chr3:161003253..161016100-chr3:161121496..161137189,33	MCF-7	breast:
3	chr3:161124593..161126837-chr3:161161985..161163633,2	MCF-7	breast:
4	chr3:160943414..160948630-chr3:161124537..161130455,7	MCF-7	breast:
5	chr3:160971885..160974225-chr3:161123587..161125747,2	MCF-7	breast:
6	chr3:160641537..160644034-chr3:161124044..161126884,2	MCF-7	breast:
7	chr3:160934874..160951087-chr3:161118055..161142485,77	MCF-7	breast:
8	chr3:160963270..160965103-chr3:161124970..161126764,2	MCF-7	breast:
9	chr3:160819969..160822199-chr3:161125222..161127254,2	MCF-7	breast:
10	chr3:161040460..161042970-chr3:161125296..161126963,2	MCF-7	breast:
11	chr3:161123627..161125975-chr9:111773232..111775768,2	MCF-7	breast:
12	chr3:161033236..161036164-chr3:161124055..161126623,3	MCF-7	breast:
13	chr17:57919104..57921742-chr3:161124811..161126893,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000271052	Chromatin interaction
ENSG00000169251	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs336549	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs336551	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs336572	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs339114	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs455386	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs461638	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs462413	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs465985	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs466626	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9863590	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
3	nsv829772	chr3:161047817-161202554	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	88 gene(s)	inside rSNPs	diseases
4	nsv877710	chr3:161087857-161245414	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	84 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161113600-161127600	Weak transcription	NHEK	skin
2	chr3:161121200-161126600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:161121400-161126800	Weak transcription	Hela-S3	cervix
4	chr3:161123000-161127400	Enhancers	HepG2	liver
5	chr3:161123200-161125600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr3:161123200-161126000	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr3:161123200-161132000	Enhancers	Stomach Mucosa	stomach
8	chr3:161123400-161125400	Enhancers	Primary T cells from cord blood	blood
9	chr3:161123600-161125400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
10	chr3:161123600-161125600	Enhancers	Dnd41	blood
11	chr3:161123600-161126200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr3:161124000-161133400	Weak transcription	Fetal Lung	lung
13	chr3:161124400-161126000	Enhancers	Liver	Liver
14	chr3:161124600-161126000	Weak transcription	Gastric	stomach
15	chr3:161124800-161126800	Enhancers	Pancreatic Islets	Pancreatic Islet
16	chr3:161124800-161127000	Weak transcription	HMEC	breast
17	chr3:161124800-161131000	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr3:161124800-161131000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr3:161125000-161125600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:161125000-161127000	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr3:161125200-161126600	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr3:161125200-161126800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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