Variant report

Variant	rs16872481
Chromosome Location	chr7:107932899-107932900
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:107930681..107933463-chr7:108038843..108040431,2	MCF-7	breast:
2	chr7:107930752..107933426-chr7:107936477..107939262,3	MCF-7	breast:
3	chr7:107926710..107929161-chr7:107930856..107933186,2	K562	blood:
4	chr7:107902658..107904390-chr7:107932763..107934813,2	MCF-7	breast:

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10224607	1.00[CEU][hapmap]
rs10257555	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs10464622	1.00[CEU][hapmap]
rs10464628	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs12531903	1.00[CEU][hapmap]
rs12669568	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs12671199	0.91[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs1269672	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs1269674	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs1269676	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs1269677	0.81[ASN][1000 genomes]
rs1269678	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs1269679	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs1269680	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs1269681	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs1269682	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs1269683	0.81[CHD][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs16872446	1.00[CEU][hapmap]
rs16872448	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs16872449	1.00[CEU][hapmap]
rs16872465	1.00[CEU][hapmap]
rs16872472	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs17155207	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs17155253	1.00[CEU][hapmap]
rs17155277	1.00[MEX][hapmap];1.00[YRI][hapmap]
rs17155280	1.00[CEU][hapmap]
rs17155301	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap]
rs17155316	1.00[CEU][hapmap]
rs17155345	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs17155362	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs17155369	1.00[CEU][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs17155400	1.00[YRI][hapmap]
rs2272618	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs2284279	1.00[CEU][hapmap]
rs2284281	1.00[CEU][hapmap]
rs2299988	1.00[CEU][hapmap]
rs2299998	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs2300008	1.00[CEU][hapmap]
rs2300010	1.00[CEU][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs2300011	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs3750140	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs3753152	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs3801929	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs41409846	1.00[ASW][hapmap]
rs4730303	1.00[YRI][hapmap]
rs59173255	0.84[ASN][1000 genomes]
rs6956041	1.00[CEU][hapmap]
rs6956711	1.00[CEU][hapmap]
rs6966259	1.00[CEU][hapmap]
rs6978117	1.00[CEU][hapmap]
rs73201503	0.81[ASN][1000 genomes]
rs73201504	0.81[ASN][1000 genomes]
rs73201511	1.00[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs73201512	0.95[ASN][1000 genomes]
rs73201513	0.95[ASN][1000 genomes]
rs73201515	1.00[ASN][1000 genomes]
rs73201518	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs759549	1.00[CHB][hapmap];0.88[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7777092	1.00[CEU][hapmap]
rs7777322	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs7783944	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7784319	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs7784353	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs7785181	1.00[CEU][hapmap]

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	esv3348839	chr7:107377311-108286538	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
2	nsv949344	chr7:107396502-107987085	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv831090	chr7:107786650-108011196	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
4	nsv888942	chr7:107893695-108055858	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv888943	chr7:107893695-108058574	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
6	nsv1030425	chr7:107910716-108041036	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:107918400-107935000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr7:107924200-107939600	Weak transcription	Pancreas	Pancrea
3	chr7:107925400-107952000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr7:107925800-107937400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr7:107927200-107935000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr7:107927200-107935200	Weak transcription	HMEC	breast
7	chr7:107927200-107939600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr7:107929800-107933600	Enhancers	Fetal Kidney	kidney
9	chr7:107930200-107933400	Enhancers	Fetal Intestine Small	intestine
10	chr7:107930200-107934800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr7:107930200-107938400	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr7:107930400-107933000	Flanking Active TSS	A549	lung
13	chr7:107930600-107933800	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr7:107930600-107934000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr7:107930600-107934000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr7:107930600-107934600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr7:107930600-107936400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr7:107930600-107938400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr7:107930800-107933000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr7:107930800-107934000	Enhancers	Brain Germinal Matrix	brain
21	chr7:107931000-107935000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr7:107931000-107947400	Weak transcription	Fetal Brain Female	brain
23	chr7:107931200-107933200	Enhancers	Adipose Nuclei	Adipose
24	chr7:107931200-107934000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr7:107931400-107933600	Weak transcription	Brain Substantia Nigra	brain
26	chr7:107931600-107933000	Weak transcription	Brain Cingulate Gyrus	brain
27	chr7:107931800-107933000	Weak transcription	Brain Hippocampus Middle	brain
28	chr7:107932000-107933200	Enhancers	HUVEC	blood vessel
29	chr7:107932000-107950600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr7:107932200-107933200	Weak transcription	Brain Angular Gyrus	brain
31	chr7:107932200-107933800	Enhancers	Pancreatic Islets	Pancreatic Islet
32	chr7:107932200-107933800	Enhancers	Fetal Lung	lung
33	chr7:107932200-107939800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr7:107932400-107933000	Weak transcription	Fetal Brain Male	brain
35	chr7:107932400-107933800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr7:107932400-107935000	Weak transcription	NHEK	skin
37	chr7:107932400-107937400	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr7:107932400-107938000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr7:107932600-107933200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr7:107932600-107933200	Enhancers	Osteobl	bone
41	chr7:107932600-107933400	Weak transcription	Brain Anterior Caudate	brain
42	chr7:107932600-107933600	Weak transcription	Aorta	Aorta
43	chr7:107932600-107933800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
44	chr7:107932600-107934600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr7:107932800-107933400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr7:107932800-107934600	Enhancers	Muscle Satellite Cultured Cells	--
47	chr7:107932800-107934600	Enhancers	NH-A	brain
48	chr7:107932800-107939600	Weak transcription	Fetal Intestine Large	intestine

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