Variant report

Variant	rs7176554
Chromosome Location	chr15:52777329-52777330
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52775070..52777888-chr15:52820871..52822715,2	MCF-7	breast:
2	chr15:52776257..52779686-chr15:52818721..52822137,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197535	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10851519	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12442200	0.83[AMR][1000 genomes]
rs1612233	1.00[AMR][1000 genomes]
rs1693488	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1693490	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1693491	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1693498	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1693503	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1693504	0.85[AMR][1000 genomes]
rs1724582	1.00[AMR][1000 genomes]
rs1724619	0.85[AMR][1000 genomes]
rs1724620	0.85[AMR][1000 genomes]
rs1724632	0.93[AFR][1000 genomes]
rs2414157	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2453987	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2462845	0.85[AMR][1000 genomes]
rs2462852	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2646030	0.83[AMR][1000 genomes]
rs2693464	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2693471	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2950061	0.95[AFR][1000 genomes];0.85[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	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
2	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
3	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
4	esv1832020	chr15:52702400-52901914	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52759200-52778200	Weak transcription	Right Atrium	heart
2	chr15:52771000-52778000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:52772200-52781600	Weak transcription	Colonic Mucosa	Colon
4	chr15:52774600-52778200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr15:52774600-52778400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr15:52774600-52783800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr15:52774600-52802600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr15:52774800-52778200	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr15:52774800-52780000	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr15:52774800-52783200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr15:52775200-52778000	Weak transcription	Brain Substantia Nigra	brain
12	chr15:52775200-52778200	Weak transcription	Brain Angular Gyrus	brain
13	chr15:52775200-52778400	Weak transcription	Thymus	Thymus
14	chr15:52775200-52788400	Weak transcription	Primary B cells from cord blood	blood
15	chr15:52775400-52777800	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr15:52776000-52777800	Weak transcription	Brain Hippocampus Middle	brain
17	chr15:52776000-52780000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr15:52776000-52780600	Weak transcription	Primary T cells from cord blood	blood
19	chr15:52776000-52783800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr15:52776200-52779000	Weak transcription	Left Ventricle	heart
21	chr15:52776200-52780000	Weak transcription	Fetal Thymus	thymus
22	chr15:52776200-52780400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr15:52776400-52777600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr15:52776400-52778400	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr15:52776400-52779000	Enhancers	Muscle Satellite Cultured Cells	--
26	chr15:52776400-52779400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr15:52776400-52779600	Weak transcription	Primary B cells from peripheral blood	blood
28	chr15:52776400-52780000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr15:52776400-52780000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr15:52776400-52780800	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr15:52776400-52789000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr15:52776400-52796200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr15:52776600-52777600	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr15:52776600-52777600	Weak transcription	Primary T helper cells PMA-I stimulated	--
35	chr15:52776600-52777600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr15:52776600-52777600	Weak transcription	Fetal Heart	heart
37	chr15:52776600-52777800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr15:52776600-52778000	Weak transcription	Brain Anterior Caudate	brain
39	chr15:52776600-52778200	Weak transcription	Adipose Nuclei	Adipose
40	chr15:52776600-52778200	Weak transcription	HSMMtube	muscle
41	chr15:52776600-52778400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr15:52776600-52779000	Weak transcription	Colon Smooth Muscle	Colon
43	chr15:52776600-52779000	Weak transcription	GM12878-XiMat	blood
44	chr15:52776600-52779600	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr15:52776600-52783800	Enhancers	HUVEC	blood vessel
46	chr15:52776800-52778200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr15:52776800-52778200	Weak transcription	Brain Cingulate Gyrus	brain
48	chr15:52776800-52778200	Weak transcription	NH-A	brain
49	chr15:52776800-52778600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr15:52776800-52778800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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