Variant report

Variant	rs73011007
Chromosome Location	chr3:144220987-144220988
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:153580940..153582973-chr3:144219455..144221982,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000188643	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11926933	1.00[ASN][1000 genomes]
rs12106820	0.91[ASN][1000 genomes]
rs16855647	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34217903	1.00[ASN][1000 genomes]
rs34892796	0.91[ASN][1000 genomes]
rs35118386	1.00[ASN][1000 genomes]
rs35127961	0.91[ASN][1000 genomes]
rs35691495	1.00[ASN][1000 genomes]
rs35817971	1.00[ASN][1000 genomes]
rs35986789	1.00[ASN][1000 genomes]
rs56165545	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56902722	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56975803	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57544326	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57959140	1.00[ASN][1000 genomes]
rs58424525	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58805587	0.91[ASN][1000 genomes]
rs58982449	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60261236	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66899526	1.00[ASN][1000 genomes]
rs6763485	1.00[ASN][1000 genomes]
rs67706818	1.00[ASN][1000 genomes]
rs6778932	1.00[ASN][1000 genomes]
rs73009071	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73009079	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73011009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73011013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73011015	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73011028	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73011034	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73871203	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73875129	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73875142	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610158	1.00[ASN][1000 genomes]
rs7614112	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7614176	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7614241	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7620185	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7629865	1.00[ASN][1000 genomes]
rs7629872	1.00[ASN][1000 genomes]
rs7636124	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7641994	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7646696	0.92[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	nsv532633	chr3:143802417-144440646	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv591928	chr3:144050897-144822081	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv2756108	chr3:144177836-144301659	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv877571	chr3:144188561-144291254	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:144216400-144221000	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr3:144216600-144221000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:144219600-144221600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr3:144220200-144221200	Enhancers	Primary hematopoietic stem cells	blood
5	chr3:144220200-144221400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:144220400-144221000	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr3:144220400-144221000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr3:144220400-144221800	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr3:144220400-144221800	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr3:144220400-144222000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:144220600-144221000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr3:144220600-144222200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links