Variant report

Variant	rs16872465
Chromosome Location	chr7:107888004-107888005
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:107886563..107889560-chr7:107893965..107897090,3	MCF-7	breast:
2	chr7:107887211..107889896-chr7:108095081..108098683,4	MCF-7	breast:
3	chr7:107885764..107888071-chr7:107990459..107993788,3	MCF-7	breast:
4	chr7:107885444..107889446-chr7:107936320..107941216,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000091129	Chromatin interaction

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10224607	1.00[CEU][hapmap]
rs10257555	1.00[CEU][hapmap]
rs10464622	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10464623	0.95[EUR][1000 genomes]
rs10464625	0.95[EUR][1000 genomes]
rs10464626	0.95[EUR][1000 genomes]
rs10464627	0.90[EUR][1000 genomes]
rs10464628	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs12531903	1.00[CEU][hapmap]
rs12665964	0.91[EUR][1000 genomes]
rs12667098	0.95[EUR][1000 genomes]
rs12667131	0.95[EUR][1000 genomes]
rs12667151	0.95[EUR][1000 genomes]
rs12667206	0.95[EUR][1000 genomes]
rs12669568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12671199	0.85[EUR][1000 genomes]
rs12672376	0.90[EUR][1000 genomes]
rs12674151	0.95[EUR][1000 genomes]
rs12674313	0.81[EUR][1000 genomes]
rs16872446	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs16872448	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16872449	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16872472	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs16872481	1.00[CEU][hapmap]
rs17155207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17155253	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17155277	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17155280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17155301	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17155316	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17155345	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs17155362	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs17155369	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2072320	1.00[EUR][1000 genomes]
rs2272618	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2284279	1.00[CEU][hapmap]
rs2284281	1.00[CEU][hapmap]
rs2299988	1.00[CEU][hapmap]
rs2299998	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2300001	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2300004	1.00[EUR][1000 genomes]
rs2300005	1.00[EUR][1000 genomes]
rs2300006	1.00[EUR][1000 genomes]
rs2300007	0.95[EUR][1000 genomes]
rs2300008	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2300009	0.95[EUR][1000 genomes]
rs2300010	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2300011	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3750140	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3753152	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3801929	1.00[CEU][hapmap]
rs3817670	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55772998	1.00[EUR][1000 genomes]
rs58432175	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58523350	1.00[EUR][1000 genomes]
rs58799340	1.00[EUR][1000 genomes]
rs59173255	1.00[EUR][1000 genomes]
rs60503554	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61040788	1.00[EUR][1000 genomes]
rs61057696	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67456250	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67592649	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67940074	0.95[EUR][1000 genomes]
rs6956041	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6956711	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6964394	1.00[EUR][1000 genomes]
rs6966259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6970634	0.86[EUR][1000 genomes]
rs6978117	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73199578	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73199594	0.95[EUR][1000 genomes]
rs73199595	0.95[EUR][1000 genomes]
rs73199599	0.95[EUR][1000 genomes]
rs73199600	0.95[EUR][1000 genomes]
rs73201503	1.00[EUR][1000 genomes]
rs73201504	1.00[EUR][1000 genomes]
rs73201511	1.00[EUR][1000 genomes]
rs73201512	1.00[EUR][1000 genomes]
rs73201513	1.00[EUR][1000 genomes]
rs73201515	1.00[EUR][1000 genomes]
rs73414373	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73727511	0.95[EUR][1000 genomes]
rs73727512	0.95[EUR][1000 genomes]
rs7777092	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7777322	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7783944	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7784319	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7784353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7785181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7796457	1.00[EUR][1000 genomes]
rs9641405	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:107884800-107890600	Weak transcription	Brain Substantia Nigra	brain
2	chr7:107885600-107888400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr7:107885600-107889400	Enhancers	Osteobl	bone
4	chr7:107885800-107888400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr7:107886000-107891200	Enhancers	Pancreatic Islets	Pancreatic Islet
6	chr7:107886200-107889400	Enhancers	HMEC	breast
7	chr7:107886200-107889600	Enhancers	HUVEC	blood vessel
8	chr7:107886400-107888400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr7:107886400-107888400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr7:107886400-107888400	Enhancers	NHEK	skin
11	chr7:107886600-107889400	Enhancers	NH-A	brain
12	chr7:107886800-107888600	Enhancers	Muscle Satellite Cultured Cells	--
13	chr7:107886800-107889000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr7:107886800-107890200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr7:107887200-107888200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr7:107887200-107888400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr7:107887200-107888800	Weak transcription	Fetal Kidney	kidney
18	chr7:107887200-107889000	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr7:107887200-107889200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr7:107887200-107890600	Weak transcription	Right Atrium	heart
21	chr7:107887200-107891800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr7:107887400-107888200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr7:107887400-107888400	Enhancers	HSMM	muscle
24	chr7:107887400-107888600	Enhancers	K562	blood
25	chr7:107887400-107889000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr7:107887400-107889800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr7:107887400-107890200	Weak transcription	Fetal Intestine Small	intestine
28	chr7:107887400-107892000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr7:107887400-107892000	Weak transcription	Pancreas	Pancrea
30	chr7:107887400-107893800	Weak transcription	Fetal Muscle Leg	muscle
31	chr7:107887400-107894000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr7:107887400-107925000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr7:107887600-107888200	Enhancers	A549	lung
34	chr7:107887600-107889000	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr7:107887600-107889000	Weak transcription	Brain Anterior Caudate	brain
36	chr7:107887600-107889000	Weak transcription	HepG2	liver
37	chr7:107887600-107889400	Weak transcription	Psoas Muscle	Psoas
38	chr7:107887600-107890600	Weak transcription	Esophagus	oesophagus
39	chr7:107887800-107888200	Weak transcription	Fetal Intestine Large	intestine
40	chr7:107887800-107888200	Weak transcription	HSMMtube	muscle
41	chr7:107887800-107888400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr7:107887800-107889000	Weak transcription	Brain Hippocampus Middle	brain
43	chr7:107887800-107889400	Weak transcription	NHDF-Ad	bronchial
44	chr7:107887800-107894000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr7:107888000-107888400	Enhancers	Primary hematopoietic stem cells short term culture	blood
46	chr7:107888000-107906800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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