Variant report

Variant	rs58894958
Chromosome Location	chr15:93257245-93257246
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:93250790..93254703-chr15:93255991..93258300,4	MCF-7	breast:
2	chr15:93195935..93200377-chr15:93256556..93260471,5	MCF-7	breast:
3	chr15:93155538..93157198-chr15:93256729..93258273,2	MCF-7	breast:
4	chr15:93187273..93189424-chr15:93256884..93259260,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185442	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1004309	0.93[ASN][1000 genomes]
rs12439654	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12440201	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12440617	0.90[ASN][1000 genomes]
rs12442362	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12442555	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12906973	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1561304	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17648050	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1808818	0.89[ASN][1000 genomes]
rs2278519	0.87[ASN][1000 genomes]
rs2278520	0.93[ASN][1000 genomes]
rs2278521	0.93[ASN][1000 genomes]
rs2387911	0.82[ASN][1000 genomes]
rs34188575	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34327113	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34913881	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35095971	0.96[ASN][1000 genomes]
rs35277112	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35351684	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35663415	0.96[ASN][1000 genomes]
rs35839849	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35982819	0.96[ASN][1000 genomes]
rs35984805	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4777729	0.90[AMR][1000 genomes]
rs4777730	0.91[AMR][1000 genomes]
rs4777731	0.91[ASN][1000 genomes]
rs4778033	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66824972	0.88[ASN][1000 genomes]
rs66934257	0.91[AMR][1000 genomes]
rs67759391	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs67770259	0.97[ASN][1000 genomes]
rs71412559	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71412560	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71412561	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71412562	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71412563	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71412564	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs71412566	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71412567	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs71412568	0.83[EUR][1000 genomes]
rs71412570	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71412571	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7165223	0.86[ASN][1000 genomes]
rs7183236	0.97[ASN][1000 genomes]
rs8039425	0.80[ASN][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	nsv1037972	chr15:92804908-93270761	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
3	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
4	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
5	nsv1040501	chr15:93177153-93286393	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv974620	chr15:93252874-93258773	Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Enhancers	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93245600-93257400	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr15:93246200-93257400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr15:93249400-93257400	Weak transcription	Brain Substantia Nigra	brain
4	chr15:93254800-93257400	Weak transcription	Lung	lung
5	chr15:93256600-93258400	Active TSS	Ovary	ovary
6	chr15:93256800-93257400	Enhancers	Colon Smooth Muscle	Colon
7	chr15:93257000-93257400	Enhancers	Fetal Muscle Leg	muscle
8	chr15:93257000-93257600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr15:93257000-93258200	Active TSS	Fetal Lung	lung
10	chr15:93257200-93257400	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
11	chr15:93257200-93257400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr15:93257200-93257400	Active TSS	Breast Myoepithelial Primary Cells	Breast
13	chr15:93257200-93257400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr15:93257200-93257400	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr15:93257200-93257400	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr15:93257200-93257400	Bivalent Enhancer	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr15:93257200-93257400	Enhancers	Muscle Satellite Cultured Cells	--
18	chr15:93257200-93257400	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr15:93257200-93257400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr15:93257200-93257400	Active TSS	Adipose Nuclei	Adipose
21	chr15:93257200-93257400	Enhancers	Liver	Liver
22	chr15:93257200-93257400	Enhancers	Colonic Mucosa	Colon
23	chr15:93257200-93257400	Enhancers	Duodenum Smooth Muscle	Duodenum
24	chr15:93257200-93257400	Bivalent/Poised TSS	Fetal Muscle Trunk	muscle
25	chr15:93257200-93257400	Flanking Active TSS	Fetal Stomach	stomach
26	chr15:93257200-93257400	Bivalent Enhancer	Thymus	Thymus
27	chr15:93257200-93257400	Bivalent Enhancer	NHEK	skin
28	chr15:93257200-93257600	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
29	chr15:93257200-93257600	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
30	chr15:93257200-93257600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
31	chr15:93257200-93257600	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr15:93257200-93257600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
33	chr15:93257200-93257600	Flanking Active TSS	Brain Angular Gyrus	brain
34	chr15:93257200-93257600	Flanking Active TSS	Brain Germinal Matrix	brain
35	chr15:93257200-93257600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
36	chr15:93257200-93257600	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
37	chr15:93257200-93257600	Flanking Active TSS	Fetal Brain Male	brain
38	chr15:93257200-93257600	Flanking Active TSS	Fetal Kidney	kidney
39	chr15:93257200-93257600	Flanking Active TSS	NH-A	brain
40	chr15:93257200-93257600	Flanking Active TSS	Osteobl	bone
41	chr15:93257200-93257800	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
42	chr15:93257200-93257800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
43	chr15:93257200-93257800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr15:93257200-93257800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr15:93257200-93257800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr15:93257200-93257800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
47	chr15:93257200-93257800	Flanking Active TSS	HUVEC	blood vessel
48	chr15:93257200-93258000	Flanking Active TSS	Stomach Smooth Muscle	stomach
49	chr15:93257200-93258200	Active TSS	ES-I3 Cell Line	embryonic stem cell
50	chr15:93257200-93258200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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