Variant report

Variant	rs345798
Chromosome Location	chr15:33379277-33379278
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:33356120..33364271-chr15:33368982..33380679,29	MCF-7	breast:
2	chr15:33378091..33379388-chr15:33424633..33425509,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000248905	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11858145	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1349964	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2604169	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2730050	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs345765	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs345771	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs345772	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs345773	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs345774	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs345777	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs345782	0.94[ASN][1000 genomes]
rs345787	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs345789	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs345790	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs345800	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs345801	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4780075	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7171647	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8024232	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv903979	chr15:33144202-33550256	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1052966	chr15:33149753-33541951	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv542340	chr15:33149753-33541951	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv903981	chr15:33207082-33550256	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv568918	chr15:33244672-33446971	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv903982	chr15:33282844-33616150	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33372600-33384200	Weak transcription	Brain Angular Gyrus	brain
2	chr15:33375400-33380000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr15:33375800-33382200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr15:33376200-33382600	Weak transcription	Esophagus	oesophagus
5	chr15:33376600-33380600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr15:33376600-33381000	Weak transcription	Psoas Muscle	Psoas
7	chr15:33376800-33384600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:33376800-33384600	Weak transcription	NH-A	brain
9	chr15:33377200-33380600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr15:33377200-33384200	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr15:33378600-33379400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr15:33378600-33379400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr15:33378600-33379600	Enhancers	HSMM	muscle
14	chr15:33378800-33379600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr15:33378800-33379600	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr15:33378800-33379600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr15:33378800-33379600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr15:33379000-33379400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr15:33379000-33379400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr15:33379000-33379400	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr15:33379000-33379400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr15:33379000-33379400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
23	chr15:33379000-33379400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
24	chr15:33379000-33379400	Enhancers	Muscle Satellite Cultured Cells	--
25	chr15:33379000-33379400	Enhancers	Thymus	Thymus
26	chr15:33379000-33379400	Enhancers	HMEC	breast
27	chr15:33379000-33379400	Enhancers	HSMMtube	muscle
28	chr15:33379000-33379400	Enhancers	NHEK	skin
29	chr15:33379000-33379400	Enhancers	Osteobl	bone
30	chr15:33379000-33379600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr15:33379000-33379600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr15:33379000-33379600	Enhancers	Primary T helper cells PMA-I stimulated	--
33	chr15:33379000-33379600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr15:33379000-33379600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr15:33379000-33379600	Enhancers	Fetal Thymus	thymus
36	chr15:33379000-33379600	Enhancers	NHDF-Ad	bronchial
37	chr15:33379000-33379600	Enhancers	NHLF	lung
38	chr15:33379000-33379800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr15:33379200-33379400	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr15:33379200-33380600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr15:33379200-33380800	Weak transcription	Pancreatic Islets	Pancreatic Islet
42	chr15:33379200-33382200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr15:33379200-33382800	Weak transcription	Fetal Kidney	kidney

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