Variant report

Variant	rs17138200
Chromosome Location	chr7:17736907-17736908
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:17712355..17715598-chr7:17735050..17738524,3	MCF-7	breast:
2	chr7:17718921..17722454-chr7:17736186..17738683,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228675	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10241453	0.88[AMR][1000 genomes]
rs10241686	0.88[AMR][1000 genomes]
rs10256609	0.88[AMR][1000 genomes]
rs10256974	0.88[AMR][1000 genomes]
rs10257171	0.86[AMR][1000 genomes]
rs10264457	0.86[AMR][1000 genomes]
rs10488473	0.85[CEU][hapmap]
rs10488474	0.85[CEU][hapmap];0.82[AMR][1000 genomes]
rs10950675	0.88[AMR][1000 genomes]
rs11763522	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11764183	0.86[AMR][1000 genomes]
rs11766639	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11766640	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11767183	0.88[AMR][1000 genomes]
rs11767212	0.88[AMR][1000 genomes]
rs11767614	0.86[AMR][1000 genomes]
rs11767702	0.86[AMR][1000 genomes]
rs11767707	0.86[AMR][1000 genomes]
rs11770723	0.88[AMR][1000 genomes]
rs11770758	0.88[AMR][1000 genomes]
rs11770975	0.88[AMR][1000 genomes]
rs11772381	0.88[AMR][1000 genomes]
rs12055958	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12056271	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12155308	0.86[AMR][1000 genomes]
rs12333540	0.88[AMR][1000 genomes]
rs12333542	0.88[AMR][1000 genomes]
rs12333670	0.88[AMR][1000 genomes]
rs12333818	0.88[AMR][1000 genomes]
rs13238802	0.95[CEU][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13239316	0.95[CEU][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17598406	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2041589	0.88[AMR][1000 genomes]
rs2041590	0.88[AMR][1000 genomes]
rs2041591	0.88[AMR][1000 genomes]
rs2041592	0.86[AMR][1000 genomes]
rs2192066	0.88[AMR][1000 genomes]
rs2215683	0.82[AMR][1000 genomes]
rs2389836	0.88[AMR][1000 genomes]
rs2389837	0.88[AMR][1000 genomes]
rs2389838	0.80[AMR][1000 genomes]
rs2723586	0.83[CEU][hapmap]
rs34061308	0.84[AMR][1000 genomes]
rs34085905	0.84[AMR][1000 genomes]
rs34267616	0.84[AMR][1000 genomes]
rs34487278	0.88[AMR][1000 genomes]
rs34581548	0.88[AMR][1000 genomes]
rs34757903	0.82[AMR][1000 genomes]
rs34924739	0.86[AMR][1000 genomes]
rs35037338	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35057721	0.84[AMR][1000 genomes]
rs35285005	0.82[AMR][1000 genomes]
rs35575660	0.84[AMR][1000 genomes]
rs35699364	0.90[AMR][1000 genomes]
rs3919527	0.86[AMR][1000 genomes]
rs4272251	0.88[AMR][1000 genomes]
rs5021389	0.86[AMR][1000 genomes]
rs5021390	0.86[AMR][1000 genomes]
rs62447458	0.84[AMR][1000 genomes]
rs71524218	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71524220	0.88[AMR][1000 genomes]
rs7456348	0.86[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv887762	chr7:16834361-17746628	Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription 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	34 gene(s)	inside rSNPs	diseases
2	nsv887763	chr7:16834361-17750811	Weak transcription Active TSS Enhancers Strong transcription 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	34 gene(s)	inside rSNPs	diseases
3	nsv887765	chr7:16839835-17750811	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv464399	chr7:17085939-17755584	Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv606343	chr7:17085939-17755584	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription 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	22 gene(s)	inside rSNPs	diseases
6	nsv887790	chr7:17228122-17746628	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
7	nsv887791	chr7:17228122-17750811	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
8	nsv869352	chr7:17237983-17932878	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS 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	23 gene(s)	inside rSNPs	diseases
9	nsv1021524	chr7:17251148-17963307	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
10	nsv1021289	chr7:17254117-17873816	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers 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	23 gene(s)	inside rSNPs	diseases
11	nsv538754	chr7:17254117-17873816	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
12	nsv534309	chr7:17254118-17932878	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
13	nsv533938	chr7:17254118-18040301	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
14	nsv887804	chr7:17571140-17885468	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
15	nsv1024398	chr7:17630148-18545073	Strong transcription Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
16	nsv538764	chr7:17630148-18545073	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
17	nsv887807	chr7:17720481-17750811	Weak transcription ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:17730000-17737600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr7:17735000-17737000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr7:17735000-17737200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr7:17735000-17737200	Enhancers	HMEC	breast
5	chr7:17735000-17737200	Enhancers	NHEK	skin
6	chr7:17735200-17737000	Enhancers	Brain Substantia Nigra	brain
7	chr7:17735200-17737200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr7:17735400-17737000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr7:17735400-17737000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr7:17735400-17737000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr7:17735400-17737000	Enhancers	Osteobl	bone
12	chr7:17735400-17738000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr7:17735600-17737000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr7:17735600-17737000	Enhancers	HepG2	liver
15	chr7:17735600-17737000	Enhancers	NHDF-Ad	bronchial
16	chr7:17735600-17737400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr7:17735800-17737000	Flanking Active TSS	A549	lung
18	chr7:17735800-17737000	Enhancers	Hela-S3	cervix
19	chr7:17735800-17737000	Enhancers	NH-A	brain
20	chr7:17736200-17737000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr7:17736200-17737000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr7:17736400-17737400	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr7:17736600-17737000	Enhancers	Muscle Satellite Cultured Cells	--
24	chr7:17736800-17737200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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