Variant report

Variant	rs8042809
Chromosome Location	chr15:42051078-42051079
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	chr15:42049130..42051110-chr15:42082054..42084370,2	MCF-7	breast:
2	chr15:42043169..42045092-chr15:42049532..42051518,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1122884	0.83[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11630972	0.91[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs11631051	0.83[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11632519	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11633160	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11634083	0.81[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11634582	1.00[JPT][hapmap]
rs11634804	0.92[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11636523	0.95[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1197667	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1197669	0.83[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1197671	0.87[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs1197672	0.87[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1197702	1.00[ASN][1000 genomes]
rs1197703	0.83[CEU][hapmap];1.00[JPT][hapmap]
rs1197705	0.88[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1197706	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12148570	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12906666	0.92[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12917387	0.87[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs17676332	1.00[JPT][hapmap]
rs17677098	0.91[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs17677757	0.87[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17678310	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2178003	0.91[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2925339	0.87[CEU][hapmap];1.00[JPT][hapmap]
rs34621600	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35476790	1.00[ASN][1000 genomes]
rs35665813	0.82[EUR][1000 genomes]
rs61104950	0.84[EUR][1000 genomes]
rs62003901	0.83[EUR][1000 genomes]
rs7167078	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs7175318	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8040094	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9646193	0.91[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049514	chr15:41958482-42081210	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
3	nsv1036086	chr15:42004962-42091451	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1041861	chr15:42016097-42062287	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
5	nsv1054671	chr15:42016097-42098896	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv1038894	chr15:42038152-42077452	Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	esv2757597	chr15:42047173-42122617	Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
8	esv2760027	chr15:42047173-42122617	Flanking Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	nsv904113	chr15:42050390-42118971	Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
10	nsv904114	chr15:42050390-42119900	Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 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	chr15:41972400-42065200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:42003800-42056000	Weak transcription	Colonic Mucosa	Colon
3	chr15:42009800-42056800	Weak transcription	Fetal Heart	heart
4	chr15:42017400-42062600	Strong transcription	Primary T cells fromperipheralblood	blood
5	chr15:42019400-42060600	Strong transcription	Primary T helper cells fromperipheralblood	blood
6	chr15:42025200-42065400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr15:42029000-42052200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr15:42029000-42054200	Weak transcription	Small Intestine	intestine
9	chr15:42035400-42054400	Weak transcription	Pancreas	Pancrea
10	chr15:42035800-42058200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:42036000-42052800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:42036000-42058400	Weak transcription	Psoas Muscle	Psoas
13	chr15:42039000-42064400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr15:42039600-42062600	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr15:42040000-42061400	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr15:42040200-42059800	Strong transcription	Primary T helper cells PMA-I stimulated	--
17	chr15:42040200-42064400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr15:42040600-42063000	Strong transcription	HUES64 Cell Line	embryonic stem cell
19	chr15:42041600-42054600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:42041800-42053400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr15:42041800-42055800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr15:42041800-42056800	Weak transcription	Esophagus	oesophagus
23	chr15:42041800-42058200	Weak transcription	Gastric	stomach
24	chr15:42042000-42053000	Weak transcription	HMEC	breast
25	chr15:42042000-42053600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr15:42042000-42057000	Weak transcription	Right Ventricle	heart
27	chr15:42042000-42057200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr15:42042200-42055800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr15:42042400-42054600	Weak transcription	Rectal Smooth Muscle	rectum
30	chr15:42042400-42054800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr15:42042600-42054200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr15:42042600-42054200	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr15:42042600-42054400	Weak transcription	A549	lung
34	chr15:42042600-42056600	Weak transcription	Aorta	Aorta
35	chr15:42042600-42056600	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr15:42042800-42052000	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr15:42042800-42052400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr15:42042800-42054600	Weak transcription	Lung	lung
39	chr15:42042800-42055000	Weak transcription	Brain Hippocampus Middle	brain
40	chr15:42042800-42055800	Weak transcription	HSMMtube	muscle
41	chr15:42042800-42056200	Weak transcription	Brain Substantia Nigra	brain
42	chr15:42042800-42057200	Weak transcription	HUVEC	blood vessel
43	chr15:42043000-42053400	Weak transcription	Brain Anterior Caudate	brain
44	chr15:42043200-42051800	Weak transcription	Brain Germinal Matrix	brain
45	chr15:42043200-42052400	Weak transcription	Brain Cingulate Gyrus	brain
46	chr15:42043200-42057200	Weak transcription	NHLF	lung
47	chr15:42044200-42055800	Weak transcription	Spleen	Spleen
48	chr15:42044400-42062600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr15:42044600-42052000	Weak transcription	K562	blood
50	chr15:42045000-42055400	Strong transcription	Hela-S3	cervix

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