Variant report

Variant	rs28476641
Chromosome Location	chr10:21602102-21602103
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	chr10:21601939..21603985-chr10:22012323..22013912,2	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

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	1.00[ASN][1000 genomes]
rs11012644	1.00[ASN][1000 genomes]
rs11012645	1.00[ASN][1000 genomes]
rs11012646	1.00[ASN][1000 genomes]
rs11012648	1.00[ASN][1000 genomes]
rs11012658	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012665	0.89[ASN][1000 genomes]
rs11814672	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12240956	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12248522	0.89[ASN][1000 genomes]
rs12250778	0.89[ASN][1000 genomes]
rs12256314	0.89[ASN][1000 genomes]
rs12259097	1.00[AFR][1000 genomes]
rs12359942	1.00[ASN][1000 genomes]
rs13377089	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16921726	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16921729	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16921744	0.89[ASN][1000 genomes]
rs2360046	0.89[ASN][1000 genomes]
rs28460291	1.00[EUR][1000 genomes]
rs34299719	0.89[ASN][1000 genomes]
rs55638725	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55672286	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57729500	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60558873	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60875963	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61851539	0.89[ASN][1000 genomes]
rs61851542	0.89[ASN][1000 genomes]
rs7070371	0.85[EUR][1000 genomes]
rs7080191	0.89[ASN][1000 genomes]
rs7085637	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7085642	0.93[EUR][1000 genomes]
rs7090939	0.89[ASN][1000 genomes]
rs7091420	0.89[ASN][1000 genomes]
rs74120911	0.93[EUR][1000 genomes]
rs7894995	0.89[ASN][1000 genomes]
rs7900321	1.00[ASN][1000 genomes]
rs7907491	0.89[ASN][1000 genomes]
rs7910000	1.00[ASN][1000 genomes]
rs7913116	0.89[ASN][1000 genomes]
rs7922927	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9971139	1.00[ASN][1000 genomes]
rs9971348	1.00[ASN][1000 genomes]
rs9971367	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:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21586400-21603000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr10:21587400-21602800	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr10:21587400-21603000	Weak transcription	Fetal Kidney	kidney
4	chr10:21589000-21602800	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr10:21589000-21603000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr10:21593600-21603000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr10:21598400-21602800	Weak transcription	Fetal Lung	lung
8	chr10:21598600-21602600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr10:21598600-21602800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr10:21598600-21602800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr10:21598600-21602800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr10:21598600-21602800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr10:21601400-21605400	Enhancers	Placenta	Placenta
14	chr10:21601600-21602200	Enhancers	A549	lung
15	chr10:21601600-21604400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr10:21601800-21603600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr10:21601800-21604200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr10:21601800-21604600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr10:21601800-21605400	Enhancers	Ovary	ovary
20	chr10:21602000-21602200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr10:21602000-21602600	Weak transcription	NHLF	lung
22	chr10:21602000-21603000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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