Variant report

Variant	rs2961562
Chromosome Location	chr10:4867313-4867314
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	chr10:4866839..4870831-chr10:5488473..5491962,3	MCF-7	breast:
2	chr10:4866089..4871671-chr10:4873094..4876081,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165568	Chromatin interaction
ENSG00000173848	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10751991	0.83[AFR][1000 genomes]
rs10795205	0.95[AFR][1000 genomes]
rs10904366	0.83[AFR][1000 genomes]
rs1901645	0.99[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2924269	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2924271	0.99[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2924273	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2924274	1.00[ASN][1000 genomes]
rs2924276	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2924278	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2961561	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2961564	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2961569	1.00[ASN][1000 genomes]
rs2961572	1.00[ASN][1000 genomes]
rs2961573	1.00[ASN][1000 genomes]
rs2961574	0.99[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2961577	0.98[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2961580	0.99[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2961582	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2961583	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2961584	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2961585	1.00[ASN][1000 genomes]
rs4242772	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4242773	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4242774	0.84[AFR][1000 genomes]
rs4347286	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4562702	0.95[AFR][1000 genomes]
rs4578280	0.84[AFR][1000 genomes]
rs4626979	0.83[AFR][1000 genomes]
rs4881356	0.95[AFR][1000 genomes]
rs7077134	0.83[AFR][1000 genomes]
rs7912440	0.89[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894792	chr10:4832920-5498724	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv948794	chr10:4863093-5227382	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 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	chr10:4855400-4867400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr10:4857600-4868000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr10:4863600-4867800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr10:4863600-4867800	Weak transcription	Osteobl	bone
5	chr10:4863600-4868000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr10:4864000-4867800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr10:4864000-4867800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr10:4864600-4868200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr10:4865000-4867800	Weak transcription	Fetal Heart	heart
10	chr10:4866800-4867800	Enhancers	K562	blood
11	chr10:4867200-4867600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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