Variant report

Variant	rs10250490
Chromosome Location	chr7:102537277-102537278
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	chr7:102526206..102528003-chr7:102535680..102538379,2	MCF-7	breast:
2	chr7:102535894..102537505-chr7:102552390..102554520,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128606	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10241865	0.96[ASN][1000 genomes]
rs10242028	0.96[ASN][1000 genomes]
rs10271157	0.96[ASN][1000 genomes]
rs10271184	0.88[ASN][1000 genomes]
rs10273725	0.89[ASN][1000 genomes]
rs10279449	0.84[ASN][1000 genomes]
rs1100046	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11514917	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11978799	0.89[ASN][1000 genomes]
rs11981980	0.80[ASN][1000 genomes]
rs12537977	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12668434	0.84[ASN][1000 genomes]
rs13233521	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13242493	0.88[ASN][1000 genomes]
rs1541519	0.84[ASN][1000 genomes]
rs1608651	0.84[ASN][1000 genomes]
rs17136090	0.84[ASN][1000 genomes]
rs2190673	0.96[ASN][1000 genomes]
rs2228686	0.81[ASN][1000 genomes]
rs2411056	0.85[ASN][1000 genomes]
rs2411059	0.89[ASN][1000 genomes]
rs28856331	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs41501847	0.89[ASN][1000 genomes]
rs4296965	0.89[ASN][1000 genomes]
rs4620204	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4729860	0.84[ASN][1000 genomes]
rs56269620	0.89[ASN][1000 genomes]
rs59544295	0.86[ASN][1000 genomes]
rs59709436	0.86[ASN][1000 genomes]
rs6465876	0.90[ASN][1000 genomes]
rs6465878	0.89[ASN][1000 genomes]
rs6465880	0.96[ASN][1000 genomes]
rs6945997	0.82[ASN][1000 genomes]
rs6947403	0.90[ASN][1000 genomes]
rs6953980	0.89[ASN][1000 genomes]
rs6960428	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7779145	0.86[ASN][1000 genomes]
rs7789252	0.84[ASN][1000 genomes]
rs7794668	0.92[ASN][1000 genomes]
rs7800548	0.89[ASN][1000 genomes]
rs7804322	0.86[ASN][1000 genomes]
rs847646	0.90[ASN][1000 genomes]
rs847648	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs847649	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs847656	0.93[ASN][1000 genomes]
rs847658	0.92[ASN][1000 genomes]
rs865865	0.88[ASN][1000 genomes]
rs869332	0.83[ASN][1000 genomes]
rs955992	0.82[ASN][1000 genomes]
rs9718453	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][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	nsv1016563	chr7:101912320-102695860	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS 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 miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1028438	chr7:101912320-102704135	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	76 gene(s)	inside rSNPs	diseases
3	nsv868996	chr7:102332827-102991361	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	esv2752138	chr7:102358320-102787135	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv470382	chr7:102375663-102538515	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv608057	chr7:102440184-102538515	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv608058	chr7:102466741-102571713	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv464667	chr7:102486254-102624192	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
9	nsv608060	chr7:102486254-102624192	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats 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	7 gene(s)	inside rSNPs	diseases
10	nsv5880	chr7:102505158-102550471	Enhancers Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:102517000-102549600	Weak transcription	Gastric	stomach
2	chr7:102517200-102578200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr7:102522600-102549200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr7:102532400-102538000	Weak transcription	Stomach Mucosa	stomach
5	chr7:102532400-102538800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr7:102532400-102538800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr7:102533400-102537800	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr7:102533600-102537800	Weak transcription	Adipose Nuclei	Adipose
9	chr7:102533600-102537800	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr7:102533800-102538000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr7:102533800-102538600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr7:102534000-102537400	Weak transcription	HUVEC	blood vessel
13	chr7:102534000-102537800	Weak transcription	Primary hematopoietic stem cells	blood
14	chr7:102534000-102537800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr7:102534000-102538400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr7:102534000-102538800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr7:102534600-102537600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr7:102535400-102537400	Strong transcription	K562	blood
19	chr7:102535600-102537400	Enhancers	Rectal Smooth Muscle	rectum
20	chr7:102535600-102538400	Enhancers	Colon Smooth Muscle	Colon
21	chr7:102535600-102539200	Enhancers	Fetal Lung	lung
22	chr7:102535600-102539200	Enhancers	Fetal Stomach	stomach
23	chr7:102536000-102538600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr7:102536200-102538800	Weak transcription	Right Atrium	heart
25	chr7:102536600-102537800	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr7:102536600-102538800	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr7:102536800-102537600	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr7:102536800-102538400	Enhancers	Fetal Kidney	kidney
29	chr7:102536800-102540000	Weak transcription	Ovary	ovary
30	chr7:102537200-102537400	Enhancers	Placenta Amnion	Placenta Amnion
31	chr7:102537200-102537400	Enhancers	NHLF	lung
32	chr7:102537200-102537600	Weak transcription	NH-A	brain
33	chr7:102537200-102538400	Weak transcription	Fetal Muscle Leg	muscle

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