Variant report

Variant	rs7617166
Chromosome Location	chr3:55890333-55890334
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:55889325..55891386-chr3:55896982..55898492,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs12636793	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs1458066	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17056053	0.96[AFR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17056061	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056065	0.88[ASN][1000 genomes]
rs17056081	0.88[ASN][1000 genomes]
rs17056090	0.88[ASN][1000 genomes]
rs17056093	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs17056098	0.88[ASN][1000 genomes]
rs1902861	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55673265	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55675302	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55682897	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55957219	1.00[ASN][1000 genomes]
rs55967115	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs55971093	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs57688760	1.00[ASN][1000 genomes]
rs58422259	1.00[ASN][1000 genomes]
rs59611401	1.00[ASN][1000 genomes]
rs62253660	0.88[ASN][1000 genomes]
rs62255821	1.00[ASN][1000 genomes]
rs62255831	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255832	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62255835	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62256771	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62256772	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62256773	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62256774	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62256778	0.88[ASN][1000 genomes]
rs6445755	0.88[ASN][1000 genomes]
rs6763408	0.88[ASN][1000 genomes]
rs6766607	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769408	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6790300	1.00[ASN][1000 genomes]
rs73073394	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs733509	0.88[ASN][1000 genomes]
rs7609626	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618265	0.88[ASN][1000 genomes]
rs7631779	1.00[ASN][1000 genomes]
rs7631846	1.00[ASN][1000 genomes]
rs7636943	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7638901	1.00[ASN][1000 genomes]
rs7639013	0.89[AFR][1000 genomes]
rs7649504	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs9815155	1.00[CHB][hapmap];1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:55887400-55890400	Enhancers	Fetal Lung	lung
2	chr3:55888800-55890400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:55888800-55890800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:55888800-55891800	Weak transcription	Brain Germinal Matrix	brain
5	chr3:55888800-55892400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:55888800-55892800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:55888800-55892800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:55888800-55892800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:55888800-55893200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr3:55888800-55893400	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr3:55889000-55892600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr3:55889000-55893200	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr3:55889000-55894000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr3:55889200-55894600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr3:55890200-55890400	Enhancers	Fetal Stomach	stomach
16	chr3:55890200-55893000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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