Variant report

Variant	rs3848127
Chromosome Location	chr15:50890333-50890334
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	chr15:50889745..50892079-chr19:13048030..13049882,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000179218	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10519279	0.94[CEU][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10519283	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1060599	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11070803	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11070806	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11631085	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11632292	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11636894	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12438769	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12438850	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12439211	0.83[AMR][1000 genomes]
rs12439783	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12440876	0.80[EUR][1000 genomes]
rs17520350	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17520448	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17598264	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17598819	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1966061	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1986073	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2011049	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4775892	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62017164	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62017165	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62017169	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62017170	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62017171	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62017192	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62017196	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017199	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017202	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62017207	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017208	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017209	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017211	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017244	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62017245	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62019152	0.83[AMR][1000 genomes]
rs62019158	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62021060	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62021061	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62021062	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8028599	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9919956	1.00[YRI][hapmap]
rs998831	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:33 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045456	chr15:50592472-51019873	Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	121 gene(s)	inside rSNPs	diseases
2	nsv948579	chr15:50645530-51045564	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
3	nsv1053966	chr15:50715572-51133186	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
4	nsv542383	chr15:50715572-51133186	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
5	nsv1043805	chr15:50715572-51208891	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
6	nsv542384	chr15:50715572-51208891	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' 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
7	nsv1047443	chr15:50744781-51647023	Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
8	nsv1051990	chr15:50745814-51133186	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
9	nsv1054970	chr15:50761410-51036625	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
10	nsv457134	chr15:50770868-51184583	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
11	nsv471242	chr15:50770868-51184583	Genic enhancers ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
12	nsv569396	chr15:50770868-51184583	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
13	nsv457135	chr15:50770868-51189707	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
14	nsv569397	chr15:50770868-51189707	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
15	nsv1048621	chr15:50775451-51115535	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
16	nsv1047039	chr15:50782070-51187804	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
17	nsv542385	chr15:50782070-51187804	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
18	nsv457136	chr15:50789125-51294995	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
19	nsv569398	chr15:50789125-51294995	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
20	nsv431389	chr15:50795835-50979738	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic 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	28 gene(s)	inside rSNPs	diseases
21	nsv1036081	chr15:50818569-51097229	Strong transcription Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
22	nsv1043387	chr15:50822035-50940979	Active TSS Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
23	nsv1055112	chr15:50822035-51133186	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
24	nsv1050385	chr15:50843495-50949798	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
25	nsv1042372	chr15:50846461-51208891	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
26	nsv542386	chr15:50846461-51208891	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
27	nsv1055119	chr15:50861470-50900685	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
28	nsv904211	chr15:50874964-50910440	Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
29	nsv569399	chr15:50874964-51562198	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
30	nsv569400	chr15:50874964-51767265	ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
31	nsv569401	chr15:50878630-50905780	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
32	nsv1048114	chr15:50885156-50949798	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
33	nsv1051400	chr15:50890333-51046283	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50846000-50950800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:50847000-50920600	Weak transcription	Aorta	Aorta
3	chr15:50848800-50894800	Strong transcription	Liver	Liver
4	chr15:50849000-50894600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:50850800-50892000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr15:50851800-50936400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr15:50852000-50897400	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr15:50852200-50896800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr15:50852800-50893200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr15:50854600-50957400	Strong transcription	Primary T helper cells fromperipheralblood	blood
11	chr15:50855600-50907200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr15:50855600-50919600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr15:50856400-50892600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr15:50857400-50922800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr15:50859400-50892000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
16	chr15:50859600-50916600	Strong transcription	Primary T cells fromperipheralblood	blood
17	chr15:50860800-50891800	Strong transcription	Primary T helper cells PMA-I stimulated	--
18	chr15:50861000-50893600	Strong transcription	Placenta	Placenta
19	chr15:50861600-50892200	Strong transcription	Dnd41	blood
20	chr15:50862800-50891000	Strong transcription	A549	lung
21	chr15:50864000-50907400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr15:50864200-50893800	Strong transcription	Osteobl	bone
23	chr15:50867400-50894800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr15:50867400-50908200	Weak transcription	Stomach Mucosa	stomach
25	chr15:50869200-50892400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr15:50869800-50893400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr15:50869800-50905400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr15:50869800-50922800	Weak transcription	Gastric	stomach
29	chr15:50869800-50967600	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr15:50871400-50891600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr15:50871600-50957600	Strong transcription	Primary monocytes fromperipheralblood	blood
32	chr15:50873600-50892200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
33	chr15:50874000-50892400	Strong transcription	Primary B cells from peripheral blood	blood
34	chr15:50875800-50892200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr15:50876400-50897600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr15:50876600-50891200	Strong transcription	Fetal Intestine Large	intestine
37	chr15:50877800-50891000	Strong transcription	HUVEC	blood vessel
38	chr15:50877800-50893000	Strong transcription	NHDF-Ad	bronchial
39	chr15:50878800-50922200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr15:50879200-50891200	Strong transcription	Primary T cells from cord blood	blood
41	chr15:50879200-50894800	Weak transcription	Colonic Mucosa	Colon
42	chr15:50879800-50893600	Strong transcription	Adipose Nuclei	Adipose
43	chr15:50880400-50891000	Strong transcription	Fetal Thymus	thymus
44	chr15:50880400-50935800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
45	chr15:50883000-50891000	Strong transcription	Muscle Satellite Cultured Cells	--
46	chr15:50883400-50892000	Strong transcription	Skeletal Muscle Female	skeletal muscle
47	chr15:50883800-50890400	Weak transcription	Brain Hippocampus Middle	brain
48	chr15:50883800-50900600	Weak transcription	Brain Angular Gyrus	brain
49	chr15:50884000-50899800	Weak transcription	Lung	lung
50	chr15:50884000-50920600	Weak transcription	Spleen	Spleen

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