Variant report

Variant	rs9588030
Chromosome Location	chr13:89274841-89274842
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RUNX3	chr13:89274597-89275112	GM12878	blood:	n/a	n/a
2	WRNIP1	chr13:89274767-89275135	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:89273831..89276576-chr13:89278587..89280292,2	MCF-7	breast:

Variant related genes	Relation type
LINC00560	TF binding region
ENSG00000261666	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1326421	0.82[AFR][1000 genomes]
rs1326422	0.82[AFR][1000 genomes]
rs1326423	0.82[AFR][1000 genomes]
rs1326424	0.84[AFR][1000 genomes]
rs1409452	0.81[AFR][1000 genomes]
rs1409453	0.84[AFR][1000 genomes]
rs1409454	0.82[AFR][1000 genomes]
rs16975357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1952189	0.82[AFR][1000 genomes]
rs2038934	0.81[AFR][1000 genomes]
rs2038935	0.81[AFR][1000 genomes]
rs2225048	0.82[AFR][1000 genomes]
rs4447288	0.84[AFR][1000 genomes]
rs4547212	0.84[AFR][1000 genomes]
rs6492230	0.84[AFR][1000 genomes]
rs7320367	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7322092	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7322593	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7325846	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7333139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7983924	0.82[AFR][1000 genomes]
rs7987127	0.84[AFR][1000 genomes]
rs7987540	0.84[AFR][1000 genomes]
rs8000708	0.82[AFR][1000 genomes]
rs8000777	0.82[AFR][1000 genomes]
rs9301417	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9301420	0.81[AFR][1000 genomes]
rs9301421	0.81[AFR][1000 genomes]
rs9515129	0.82[AFR][1000 genomes]
rs9521558	0.82[AFR][1000 genomes]
rs9521561	0.82[AFR][1000 genomes]
rs9583436	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs9583437	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9588012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9588013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9588016	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9588017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9588019	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9588020	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9588027	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9588028	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];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	nsv870345	chr13:89164439-89295782	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1051177	chr13:89219432-89359036	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv900816	chr13:89224649-89392881	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1051359	chr13:89258679-89311805	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:89273800-89276000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr13:89274000-89276400	Enhancers	Primary T cells from cord blood	blood
3	chr13:89274400-89275000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr13:89274400-89275600	Enhancers	NHEK	skin
5	chr13:89274400-89275800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr13:89274600-89275000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr13:89274600-89275200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
8	chr13:89274800-89275000	Active TSS	Primary T helper naive cells from peripheral blood	blood
9	chr13:89274800-89275200	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr13:89274800-89275200	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
11	chr13:89274800-89276000	Enhancers	Primary T killer naive cells fromperipheralblood	blood

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