Variant report

Variant	rs73878321
Chromosome Location	chr3:161123888-161123889
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:161003253..161016100-chr3:161121496..161137189,33	MCF-7	breast:
2	chr3:160971885..160974225-chr3:161123587..161125747,2	MCF-7	breast:
3	chr3:160939797..160942710-chr3:161123467..161125153,2	MCF-7	breast:
4	chr3:160934874..160951087-chr3:161118055..161142485,77	MCF-7	breast:
5	chr3:160816959..160819020-chr3:161122102..161124044,2	MCF-7	breast:
6	chr3:161123627..161125975-chr9:111773232..111775768,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169255	Chromatin interaction
ENSG00000271052	Chromatin interaction
ENSG00000169251	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs12632537	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12634006	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16832203	0.96[EUR][1000 genomes]
rs57175632	0.84[ASN][1000 genomes]
rs57278490	0.87[EUR][1000 genomes]
rs57496534	0.87[EUR][1000 genomes]
rs57803909	0.87[EUR][1000 genomes]
rs58350275	0.87[EUR][1000 genomes]
rs58550445	0.82[AFR][1000 genomes]
rs58557417	0.80[EUR][1000 genomes]
rs58562874	0.87[EUR][1000 genomes]
rs59541314	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59761692	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59964190	0.87[EUR][1000 genomes]
rs60172527	0.84[ASN][1000 genomes]
rs60400555	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60612225	0.87[EUR][1000 genomes]
rs60684226	0.87[EUR][1000 genomes]
rs61048679	1.00[AMR][1000 genomes]
rs61217744	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73021435	0.84[ASN][1000 genomes]
rs73878307	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73878308	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73878311	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73878313	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73878322	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73878324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73878325	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73878328	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7625217	0.87[EUR][1000 genomes]
rs873183	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs896080	0.91[EUR][1000 genomes];0.87[ASN][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:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161113600-161127600	Weak transcription	NHEK	skin
2	chr3:161119000-161124400	Weak transcription	Liver	Liver
3	chr3:161121200-161124800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr3:161121200-161125000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:161121200-161126600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:161121400-161126800	Weak transcription	Hela-S3	cervix
7	chr3:161121600-161124400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:161123000-161124000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:161123000-161127400	Enhancers	HepG2	liver
10	chr3:161123200-161125000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr3:161123200-161125200	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr3:161123200-161125600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr3:161123200-161126000	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr3:161123200-161132000	Enhancers	Stomach Mucosa	stomach
15	chr3:161123400-161124800	Enhancers	Fetal Thymus	thymus
16	chr3:161123400-161125200	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr3:161123400-161125200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr3:161123400-161125400	Enhancers	Primary T cells from cord blood	blood
19	chr3:161123600-161125000	Enhancers	Primary T cells fromperipheralblood	blood
20	chr3:161123600-161125200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr3:161123600-161125200	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr3:161123600-161125400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr3:161123600-161125600	Enhancers	Dnd41	blood
24	chr3:161123600-161126200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr3:161123800-161124600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
26	chr3:161123800-161124600	Enhancers	Gastric	stomach
27	chr3:161123800-161125000	Enhancers	Primary hematopoietic stem cells short term culture	blood

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