Variant report

Variant	rs7513769
Chromosome Location	chr1:85610585-85610586
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1037745	0.90[ASN][1000 genomes]
rs11161533	0.98[ASN][1000 genomes]
rs11161536	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs11161537	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs11161544	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs11805650	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12021868	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12022814	1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12023751	0.95[EUR][1000 genomes]
rs12028707	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12034359	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12034501	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12034937	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12036276	1.00[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12039804	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12040408	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12041155	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12043409	1.00[CEU][hapmap];0.86[JPT][hapmap];0.95[EUR][1000 genomes]
rs12045141	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12084434	0.97[ASN][1000 genomes]
rs12087427	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs1674179	1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17099217	1.00[CEU][hapmap]
rs17121656	1.00[CEU][hapmap]
rs17121745	1.00[CEU][hapmap]
rs17121978	1.00[CEU][hapmap]
rs2007508	0.98[ASN][1000 genomes]
rs2068427	0.96[ASN][1000 genomes]
rs2305931	1.00[CEU][hapmap]
rs2994490	0.96[ASN][1000 genomes]
rs3013111	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs3209418	0.97[ASN][1000 genomes]
rs3364	0.96[ASN][1000 genomes]
rs56191061	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57516443	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57530923	0.98[ASN][1000 genomes]
rs58068482	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58246117	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58604582	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58859506	0.89[AFR][1000 genomes]
rs60875782	0.97[ASN][1000 genomes]
rs709785	0.94[ASN][1000 genomes]
rs709787	0.96[ASN][1000 genomes]
rs72482805	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72950882	0.96[AFR][1000 genomes]
rs72950887	0.98[AFR][1000 genomes]
rs72950898	0.88[AFR][1000 genomes]
rs72952618	0.86[AFR][1000 genomes]
rs72952624	0.83[AFR][1000 genomes]
rs72952634	0.83[AFR][1000 genomes]
rs817387	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs817395	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs817400	1.00[ASN][1000 genomes]
rs817409	0.94[ASN][1000 genomes]
rs817410	0.97[ASN][1000 genomes]
rs817413	0.88[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs817414	0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs817416	0.96[ASN][1000 genomes]
rs817418	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817419	0.96[ASN][1000 genomes]
rs817420	0.96[ASN][1000 genomes]
rs817421	0.96[ASN][1000 genomes]
rs817424	0.96[ASN][1000 genomes]
rs817426	0.96[ASN][1000 genomes]
rs817427	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817429	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817430	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817431	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817432	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817433	0.96[ASN][1000 genomes]
rs817435	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817437	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817439	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817440	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs817441	0.96[ASN][1000 genomes]
rs817452	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[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	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	esv34165	chr1:85542040-85846249	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv830459	chr1:85589585-85786311	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:85594800-85614400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr1:85603800-85614200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:85603800-85615600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr1:85603800-85618800	Weak transcription	Gastric	stomach
5	chr1:85603800-85632200	Weak transcription	Fetal Lung	lung
6	chr1:85604800-85611800	Weak transcription	Placenta	Placenta
7	chr1:85608600-85614200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr1:85608600-85655200	Weak transcription	Aorta	Aorta
9	chr1:85608800-85629200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr1:85609200-85614200	Weak transcription	Left Ventricle	heart
11	chr1:85609400-85610600	Enhancers	Fetal Intestine Small	intestine
12	chr1:85609400-85611400	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr1:85609800-85610600	Enhancers	H1 Cell Line	embryonic stem cell
14	chr1:85609800-85610600	Enhancers	Small Intestine	intestine
15	chr1:85609800-85611400	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr1:85610000-85610800	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr1:85610000-85610800	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr1:85610200-85611400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr1:85610200-85611400	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr1:85610200-85611600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr1:85610400-85610800	Active TSS	iPS-20b Cell Line	embryonic stem cell
22	chr1:85610400-85611400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr1:85610400-85613800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr1:85610400-85614200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr1:85610400-85615600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr1:85610400-85647800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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