Variant report

Variant	rs9639838
Chromosome Location	chr7:40873916-40873917
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:40873081..40874051-chr7:41750669..41751620,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10226883	0.85[ASN][1000 genomes]
rs10227436	0.85[ASN][1000 genomes]
rs10231596	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10237052	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10246441	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10247275	0.91[YRI][hapmap]
rs10255986	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs10266350	0.94[EUR][1000 genomes]
rs10268023	0.92[EUR][1000 genomes]
rs12019351	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12537964	0.92[YRI][hapmap]
rs12538907	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12538933	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12538949	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12538965	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13246232	0.91[YRI][hapmap]
rs17688697	0.85[ASN][1000 genomes]
rs17714442	0.94[EUR][1000 genomes]
rs1921753	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1921754	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1921755	0.85[ASN][1000 genomes]
rs1921756	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1921757	0.83[CEU][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2005766	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2010706	0.80[ASN][1000 genomes]
rs2108377	0.85[ASN][1000 genomes]
rs28583134	0.90[EUR][1000 genomes]
rs28621645	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2876979	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3801239	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs4050954	0.81[ASN][1000 genomes]
rs4050966	0.85[ASN][1000 genomes]
rs4085300	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs4265100	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4425648	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4720378	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4720379	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4720380	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4720381	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4723979	0.81[CEU][hapmap]
rs4723982	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4723983	0.85[ASN][1000 genomes]
rs6462989	0.92[YRI][hapmap]
rs67369140	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6949092	0.82[AFR][1000 genomes]
rs6952729	0.92[EUR][1000 genomes]
rs6952818	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6952995	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6957123	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6963162	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6970936	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6971120	0.80[ASN][1000 genomes]
rs699484	0.80[ASN][1000 genomes]
rs732890	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs758010	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7777500	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7808121	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7808304	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7808678	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7809237	0.88[ASN][1000 genomes]
rs7809981	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][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	nsv1030648	chr7:40218618-41032599	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv830972	chr7:40814709-40945917	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv1827128	chr7:40862370-40886576	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:40867600-40882600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr7:40867800-40875800	Weak transcription	NHEK	skin
3	chr7:40867800-40877200	Weak transcription	HSMM	muscle
4	chr7:40868800-40879400	Weak transcription	HSMMtube	muscle
5	chr7:40869800-40874800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr7:40869800-40879400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr7:40872800-40874000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr7:40873400-40874000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr7:40873600-40874000	Enhancers	Hela-S3	cervix
10	chr7:40873600-40874000	Enhancers	NHDF-Ad	bronchial
11	chr7:40873600-40879400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr7:40873800-40874800	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr7:40873800-40874800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr7:40873800-40874800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr7:40873800-40875000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr7:40873800-40875000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr7:40873800-40879400	Weak transcription	HMEC	breast

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