Variant report

Variant	rs1669874
Chromosome Location	chr15:52684954-52684955
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	chr15:52684122..52687406-chr15:52689742..52694048,4	MCF-7	breast:
2	chr15:52683428..52686900-chr15:52692010..52696057,4	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1104800	0.98[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1669870	0.96[AFR][1000 genomes]
rs1669872	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2242059	0.96[AFR][1000 genomes]
rs2693458	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7171999	0.98[AFR][1000 genomes];0.82[AMR][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	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv1054899	chr15:52662365-52803756	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52644600-52730200	Weak transcription	Esophagus	oesophagus
2	chr15:52647400-52690600	Strong transcription	Primary neutrophils fromperipheralblood	blood
3	chr15:52649000-52687200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr15:52658400-52687200	Weak transcription	Small Intestine	intestine
5	chr15:52662600-52685000	Weak transcription	Psoas Muscle	Psoas
6	chr15:52663200-52711400	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr15:52663400-52708600	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr15:52665200-52720600	Weak transcription	Pancreas	Pancrea
9	chr15:52667000-52686000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr15:52667000-52686600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:52668800-52730400	Weak transcription	Aorta	Aorta
12	chr15:52669400-52693400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr15:52673800-52730200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr15:52674000-52703800	Weak transcription	Fetal Brain Male	brain
15	chr15:52675000-52686200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr15:52675000-52697400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr15:52676000-52705600	Weak transcription	Fetal Stomach	stomach
18	chr15:52676200-52686400	Weak transcription	Fetal Muscle Leg	muscle
19	chr15:52676200-52696800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr15:52676200-52701800	Weak transcription	Colon Smooth Muscle	Colon
21	chr15:52676400-52685600	Weak transcription	Liver	Liver
22	chr15:52676400-52696800	Weak transcription	Brain Germinal Matrix	brain
23	chr15:52676400-52696800	Weak transcription	Dnd41	blood
24	chr15:52676400-52697000	Weak transcription	Rectal Smooth Muscle	rectum
25	chr15:52676400-52699600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr15:52676400-52701000	Weak transcription	HMEC	breast
27	chr15:52676400-52709800	Weak transcription	NHLF	lung
28	chr15:52676400-52721400	Weak transcription	Gastric	stomach
29	chr15:52676600-52689000	Weak transcription	Primary hematopoietic stem cells	blood
30	chr15:52676600-52698000	Weak transcription	Fetal Thymus	thymus
31	chr15:52676600-52701800	Weak transcription	Right Ventricle	heart
32	chr15:52676600-52706400	Weak transcription	Lung	lung
33	chr15:52676600-52718600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr15:52677000-52730000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr15:52677800-52689200	Weak transcription	Brain Anterior Caudate	brain
36	chr15:52679800-52729600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr15:52679800-52740000	Weak transcription	Spleen	Spleen
38	chr15:52680600-52686200	Weak transcription	GM12878-XiMat	blood
39	chr15:52680600-52719800	Weak transcription	NH-A	brain
40	chr15:52680800-52716400	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr15:52680800-52730000	Weak transcription	Brain Angular Gyrus	brain
42	chr15:52680800-52740200	Weak transcription	Thymus	Thymus
43	chr15:52681000-52685000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr15:52681000-52696600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr15:52681000-52696800	Weak transcription	Ovary	ovary
46	chr15:52681000-52706800	Weak transcription	Brain Substantia Nigra	brain
47	chr15:52681200-52689200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr15:52681200-52701000	Weak transcription	Duodenum Mucosa	Duodenum
49	chr15:52682600-52693200	Strong transcription	Primary B cells from cord blood	blood
50	chr15:52682800-52685400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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