Variant report

Variant	rs9541509
Chromosome Location	chr13:69285816-69285817
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:69285714..69286598-chr13:69319387..69320170,3	MCF-7	breast:
2	chr13:69260112..69260846-chr13:69285482..69286306,2	MCF-7	breast:
3	chr13:69281888..69284510-chr13:69284969..69287100,2	K562	blood:
4	chr13:69261144..69263388-chr13:69284618..69286596,2	MCF-7	breast:
5	chr13:69259986..69260836-chr13:69285583..69286413,2	MCF-7	breast:
6	chr13:69285777..69286462-chr13:69319713..69320490,3	MCF-7	breast:

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs1470015	1.00[AFR][1000 genomes]
rs1837247	1.00[AFR][1000 genomes]
rs2438438	1.00[AFR][1000 genomes]
rs2438440	1.00[AFR][1000 genomes]
rs2492555	1.00[AFR][1000 genomes]
rs2492560	1.00[AFR][1000 genomes]
rs2492575	1.00[AFR][1000 genomes]
rs2492578	1.00[AFR][1000 genomes]
rs2492579	1.00[AFR][1000 genomes]
rs287335	0.89[EUR][1000 genomes]
rs287377	1.00[CEU][hapmap]
rs287380	0.98[EUR][1000 genomes]
rs287382	0.98[EUR][1000 genomes]
rs287408	0.89[CEU][hapmap]
rs287411	0.90[CEU][hapmap]
rs378178	0.81[EUR][1000 genomes]
rs414259	0.89[EUR][1000 genomes]
rs470150	0.82[EUR][1000 genomes]
rs4884795	1.00[CEU][hapmap]
rs537778	0.82[EUR][1000 genomes]
rs602114	1.00[AFR][1000 genomes]
rs604741	1.00[AFR][1000 genomes]
rs623332	1.00[AFR][1000 genomes]
rs634525	1.00[AFR][1000 genomes]
rs665286	0.82[EUR][1000 genomes]
rs73200299	1.00[AFR][1000 genomes]
rs73201907	1.00[AFR][1000 genomes]
rs73201909	1.00[AFR][1000 genomes]
rs73206158	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73206165	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73206166	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73206168	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73206169	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73206170	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73206171	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73206174	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73206176	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73206182	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73206183	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73206188	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73206191	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73206192	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73206193	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73206194	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73206195	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73206196	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73206197	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73206198	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73206199	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73206200	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73206201	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73207803	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73207804	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73207805	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73207807	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7350653	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9317720	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9317721	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9317722	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9529365	1.00[AFR][1000 genomes]
rs9529366	1.00[AFR][1000 genomes]
rs9529399	0.86[CEU][hapmap]
rs9529406	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9529407	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9529411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9529412	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9529413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9529414	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9529419	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9529420	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9529421	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9529422	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9529423	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9529424	0.94[EUR][1000 genomes]
rs9541431	1.00[AFR][1000 genomes]
rs9541432	1.00[AFR][1000 genomes]
rs9541433	1.00[AFR][1000 genomes]
rs9541441	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9541451	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9541458	0.89[EUR][1000 genomes]
rs9541483	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs9541496	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9541497	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9541498	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9541499	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9541500	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9541501	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9541502	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9541503	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9541504	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9541505	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9541506	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9541507	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9541508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9541510	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9541511	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9541513	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9541514	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9541515	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9541522	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9541525	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9541526	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9541527	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900442	chr13:69223307-69387266	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv900444	chr13:69233599-69380036	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1078	chr13:69234473-69287002	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1049303	chr13:69238676-69923558	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv900446	chr13:69240180-69328753	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv562163	chr13:69240945-69302618	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv900450	chr13:69249927-69361505	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1038918	chr13:69251052-69919763	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv541829	chr13:69251052-69919763	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:69281600-69288000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr13:69283000-69288800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr13:69283200-69287000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr13:69283600-69287000	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr13:69285200-69287800	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr13:69285400-69287400	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr13:69285600-69286000	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr13:69285600-69286600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr13:69285600-69286600	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr13:69285600-69286600	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr13:69285600-69289800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr13:69285600-69290400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr13:69285800-69286000	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr13:69285800-69286200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr13:69285800-69286800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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