Variant report

Variant	rs12359942
Chromosome Location	chr10:21583630-21583631
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	chr10:21573800..21576444-chr10:21582044..21583785,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10218879	0.89[ASN][1000 genomes]
rs10218952	0.89[ASN][1000 genomes]
rs10218971	0.89[ASN][1000 genomes]
rs10218986	0.89[ASN][1000 genomes]
rs11012642	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012644	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012645	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012646	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012648	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012658	1.00[ASN][1000 genomes]
rs11012665	0.89[ASN][1000 genomes]
rs12240956	1.00[ASN][1000 genomes]
rs12248522	0.89[ASN][1000 genomes]
rs12250778	0.89[ASN][1000 genomes]
rs12252084	0.82[JPT][hapmap]
rs12256314	0.89[ASN][1000 genomes]
rs13377089	1.00[ASN][1000 genomes]
rs16921726	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16921744	0.89[ASN][1000 genomes]
rs2360046	0.89[ASN][1000 genomes]
rs28476641	1.00[ASN][1000 genomes]
rs34299719	0.89[ASN][1000 genomes]
rs55638725	1.00[ASN][1000 genomes]
rs55672286	1.00[ASN][1000 genomes]
rs60875963	1.00[ASN][1000 genomes]
rs61851539	0.89[ASN][1000 genomes]
rs61851542	0.89[ASN][1000 genomes]
rs7080191	0.89[ASN][1000 genomes]
rs7085637	1.00[ASN][1000 genomes]
rs7090939	0.89[ASN][1000 genomes]
rs7091420	0.89[ASN][1000 genomes]
rs7894995	0.89[ASN][1000 genomes]
rs7900321	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7907491	0.89[ASN][1000 genomes]
rs7910000	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7913116	0.89[ASN][1000 genomes]
rs7922927	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9971139	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9971348	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9971367	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[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	nsv530148	chr10:21065080-21724565	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv831807	chr10:21509185-21688043	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv2761579	chr10:21554557-21612760	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21582400-21583800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr10:21582400-21583800	Enhancers	NHEK	skin
3	chr10:21582600-21583800	Flanking Active TSS	A549	lung
4	chr10:21582800-21583800	Enhancers	H9 Cell Line	embryonic stem cell
5	chr10:21582800-21584000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:21582800-21586800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr10:21583000-21583800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr10:21583000-21583800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr10:21583000-21584000	Enhancers	H1 Cell Line	embryonic stem cell
10	chr10:21583000-21584000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:21583000-21584200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr10:21583000-21584400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:21583000-21584800	Weak transcription	Esophagus	oesophagus
14	chr10:21583000-21585200	Weak transcription	Fetal Brain Female	brain
15	chr10:21583000-21586600	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr10:21583200-21584000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr10:21583200-21584800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr10:21583200-21586600	Weak transcription	Placenta	Placenta
19	chr10:21583400-21586600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr10:21583400-21586800	Weak transcription	Fetal Kidney	kidney
21	chr10:21583400-21593000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr10:21583600-21583800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr10:21583600-21583800	Enhancers	iPS-15b Cell Line	embryonic stem cell
24	chr10:21583600-21584200	Enhancers	iPS-20b Cell Line	embryonic stem cell
25	chr10:21583600-21584400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr10:21583600-21584600	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr10:21583600-21584600	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr10:21583600-21584600	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr10:21583600-21584800	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr10:21583600-21585000	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr10:21583600-21585400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr10:21583600-21587600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr10:21583600-21588400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr10:21583600-21588600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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