Variant report

Variant	rs28412110
Chromosome Location	chr15:75907636-75907637
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:75907192..75909310-chr15:75916098..75917723,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260235	Chromatin interaction
ENSG00000169371	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs12102136	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16967294	1.00[AMR][1000 genomes]
rs16967508	1.00[EUR][1000 genomes]
rs28362067	1.00[AMR][1000 genomes]
rs28372561	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28395383	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28396803	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28398053	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28413637	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28414758	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28420558	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28432282	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28447345	1.00[EUR][1000 genomes]
rs28450740	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28461701	1.00[EUR][1000 genomes]
rs28504376	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28505697	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28510991	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28519586	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28521156	1.00[EUR][1000 genomes]
rs28530778	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28533248	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28550881	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28567605	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28628290	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28628820	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28645531	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28664638	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28677951	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28695912	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28711283	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28727341	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3991368	1.00[AMR][1000 genomes]
rs56686272	1.00[AMR][1000 genomes]
rs57267837	1.00[AMR][1000 genomes]
rs58167659	1.00[AMR][1000 genomes]
rs58689645	1.00[AMR][1000 genomes]
rs58840197	1.00[EUR][1000 genomes]
rs59944002	1.00[AMR][1000 genomes]
rs60159975	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60465775	1.00[AMR][1000 genomes]
rs60544586	1.00[AMR][1000 genomes]
rs73439281	1.00[AMR][1000 genomes]
rs73439290	1.00[AMR][1000 genomes]
rs73439302	1.00[AMR][1000 genomes]
rs73442996	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73444997	1.00[AMR][1000 genomes]
rs74026527	1.00[EUR][1000 genomes]
rs8026666	1.00[EUR][1000 genomes]
rs8033538	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8039385	1.00[AMR][1000 genomes]
rs8041384	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531901	chr15:75600108-76019966	Genic enhancers Flanking Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
2	esv3445070	chr15:75623136-76045948	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	nsv530345	chr15:75628556-75951011	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	158 gene(s)	inside rSNPs	diseases
4	nsv1048028	chr15:75637515-76019967	Strong transcription Genic enhancers Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	161 gene(s)	inside rSNPs	diseases
5	nsv542436	chr15:75637515-76019967	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	161 gene(s)	inside rSNPs	diseases
6	esv1800424	chr15:75692303-75991451	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	124 gene(s)	inside rSNPs	diseases
7	nsv531902	chr15:75724505-75919237	Flanking Active TSS Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
8	nsv531903	chr15:75889302-76342128	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
9	esv1813854	chr15:75898640-76002392	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75880400-75912400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr15:75882200-75910400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
3	chr15:75882800-75911400	Strong transcription	Fetal Muscle Leg	muscle
4	chr15:75883400-75911800	Strong transcription	Fetal Stomach	stomach
5	chr15:75883800-75911600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr15:75883800-75911800	Strong transcription	Fetal Muscle Trunk	muscle
7	chr15:75886000-75912400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr15:75887600-75912400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr15:75889400-75917600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr15:75889800-75912600	Weak transcription	Right Atrium	heart
11	chr15:75889800-75917600	Weak transcription	Fetal Heart	heart
12	chr15:75890600-75917000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr15:75891000-75917200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr15:75891800-75912400	Weak transcription	Stomach Mucosa	stomach
15	chr15:75892000-75913200	Strong transcription	Liver	Liver
16	chr15:75894800-75910000	Strong transcription	Brain Inferior Temporal Lobe	brain
17	chr15:75894800-75913400	Strong transcription	Fetal Intestine Large	intestine
18	chr15:75896000-75911800	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr15:75896000-75912400	Strong transcription	Duodenum Smooth Muscle	Duodenum
20	chr15:75896000-75913400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
21	chr15:75896200-75912000	Strong transcription	Placenta	Placenta
22	chr15:75896400-75913400	Strong transcription	Fetal Intestine Small	intestine
23	chr15:75896800-75913400	Strong transcription	HUES6 Cell Line	embryonic stem cell
24	chr15:75897000-75913000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr15:75897000-75914000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr15:75897400-75911800	Strong transcription	NHDF-Ad	bronchial
27	chr15:75897800-75913400	Strong transcription	Fetal Brain Female	brain
28	chr15:75898400-75911400	Strong transcription	Rectal Mucosa Donor 31	rectum
29	chr15:75898600-75912400	Strong transcription	Muscle Satellite Cultured Cells	--
30	chr15:75899800-75909200	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr15:75899800-75912600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr15:75899800-75912600	Strong transcription	Duodenum Mucosa	Duodenum
33	chr15:75900000-75912400	Strong transcription	Osteobl	bone
34	chr15:75900200-75911000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr15:75900600-75908800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr15:75900600-75911800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr15:75901200-75908200	Weak transcription	Psoas Muscle	Psoas
38	chr15:75901200-75911000	Strong transcription	Primary T helper cells PMA-I stimulated	--
39	chr15:75901200-75911600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr15:75901200-75912200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr15:75901200-75912600	Strong transcription	Primary T cells from cord blood	blood
42	chr15:75901200-75912600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr15:75901400-75912400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr15:75901400-75912600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr15:75901800-75912600	Strong transcription	Primary T helper cells fromperipheralblood	blood
46	chr15:75902000-75913000	Weak transcription	Small Intestine	intestine
47	chr15:75902400-75908200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr15:75902400-75909000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr15:75902400-75909000	Weak transcription	HepG2	liver
50	chr15:75903000-75908600	Weak transcription	Colonic Mucosa	Colon

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