Variant report

Variant	rs7161900
Chromosome Location	chr15:59771962-59771963
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	chr15:59764994..59767258-chr15:59770089..59772109,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11071444	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11071445	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11071446	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11853300	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11853709	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11853900	1.00[ASN][1000 genomes]
rs11853953	1.00[ASN][1000 genomes]
rs11854967	0.82[EUR][1000 genomes]
rs11856047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11856481	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11857239	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11857953	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs11858284	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11858288	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16941441	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16941446	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs16941448	0.87[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[YRI][hapmap];1.00[ASN][1000 genomes]
rs16941450	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[ASN][1000 genomes]
rs4597258	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs56327354	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57391884	1.00[ASN][1000 genomes]
rs57767828	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58087393	0.83[EUR][1000 genomes]
rs58433957	1.00[ASN][1000 genomes]
rs59266497	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs71119480	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73417042	1.00[ASN][1000 genomes]
rs73417089	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73418913	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8028232	1.00[ASN][1000 genomes]
rs8028330	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.85[ASN][1000 genomes]
rs8029395	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs8036164	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv904278	chr15:59705005-59784648	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7161900	TRIM9	trans	lymphoblastoid	seeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59736800-59785000	Weak transcription	Fetal Brain Male	brain
2	chr15:59755800-59774800	Weak transcription	A549	lung
3	chr15:59760400-59773800	Weak transcription	GM12878-XiMat	blood
4	chr15:59760800-59778800	Weak transcription	Fetal Brain Female	brain
5	chr15:59766200-59776000	Weak transcription	Brain Angular Gyrus	brain
6	chr15:59767600-59785000	Weak transcription	Pancreas	Pancrea
7	chr15:59770200-59783000	Weak transcription	Brain Germinal Matrix	brain
8	chr15:59771200-59772600	Enhancers	Fetal Heart	heart
9	chr15:59771800-59772800	Enhancers	Left Ventricle	heart
10	chr15:59771800-59784400	Weak transcription	Hela-S3	cervix

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