Variant report

Variant	rs12459138
Chromosome Location	chr19:35848339-35848340
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	FOXA1	chr19:35848315-35848517	T-47D	breast:	n/a	n/a

Variant related genes	Relation type
FFAR3	TF binding region

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs17705188	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2312585	0.80[AMR][1000 genomes]
rs417030	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs756901	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs8100218	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9916954	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1060100	chr19:35658505-36170042	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv543993	chr19:35658505-36170042	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
4	nsv510765	chr19:35708226-35890668	Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
5	esv2758497	chr19:35711078-35887113	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
6	esv2758758	chr19:35711078-35887113	Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
7	nsv833810	chr19:35782588-35971959	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
8	esv1828194	chr19:35812566-35865695	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
9	nsv1067129	chr19:35827036-35849310	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
10	nsv173	chr19:35837405-35866835	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
11	nsv2471	chr19:35837405-35903115	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
12	esv3399851	chr19:35841723-35854402	Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
13	esv2762943	chr19:35846150-35861848	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
14	nsv978808	chr19:35847153-35852217	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
15	nsv869598	chr19:35847245-35870922	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
16	esv1818841	chr19:35848339-35863299	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:35838200-35849200	Weak transcription	Brain Hippocampus Middle	brain
2	chr19:35839200-35848600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr19:35839200-35848800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr19:35840800-35848400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr19:35843800-35848600	Weak transcription	Gastric	stomach
6	chr19:35844000-35848400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr19:35844000-35848800	Weak transcription	Primary hematopoietic stem cells	blood
8	chr19:35844000-35849000	Weak transcription	Ovary	ovary
9	chr19:35844000-35849000	Weak transcription	Spleen	Spleen
10	chr19:35844200-35848400	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr19:35844200-35848400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr19:35844200-35848400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr19:35844200-35848800	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr19:35844200-35849000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr19:35844200-35849000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr19:35844600-35849000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr19:35845000-35848400	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr19:35846400-35848800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr19:35847000-35848400	Weak transcription	HepG2	liver
20	chr19:35847200-35848600	Weak transcription	Adipose Nuclei	Adipose
21	chr19:35847200-35848800	Weak transcription	Liver	Liver
22	chr19:35847200-35852000	Weak transcription	GM12878-XiMat	blood
23	chr19:35847600-35848600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr19:35847600-35848600	Weak transcription	Fetal Lung	lung
25	chr19:35847600-35848800	Weak transcription	Fetal Muscle Trunk	muscle
26	chr19:35848000-35848400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr19:35848200-35848800	Enhancers	Primary neutrophils fromperipheralblood	blood
28	chr19:35848200-35849200	Enhancers	Pancreatic Islets	Pancreatic Islet
29	chr19:35848200-35849400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
30	chr19:35848200-35849600	Enhancers	Primary monocytes fromperipheralblood	blood

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