Variant report

Variant	rs7866793
Chromosome Location	chr9:6055039-6055040
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:5885830..5887288-chr9:6054244..6055346,7	MCF-7	breast:
2	chr9:6013951..6016263-chr9:6053852..6055883,2	MCF-7	breast:
3	chr9:5869510..5870389-chr9:6054637..6055402,2	K562	blood:
4	chr9:6041127..6043265-chr9:6054435..6057249,2	MCF-7	breast:
5	chr9:6054654..6056123-chr9:6305613..6307254,7	MCF-7	breast:
6	chr9:6054942..6055457-chr9:6353907..6354484,2	MCF-7	breast:
7	chr9:5890360..5891992-chr9:6052880..6055803,2	K562	blood:
8	chr9:5886117..5886694-chr9:6054993..6055882,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000120215	Chromatin interaction
ENSG00000137040	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10121480	1.00[CEU][hapmap]
rs10733517	1.00[CEU][hapmap]
rs10733520	1.00[CEU][hapmap]
rs10739079	1.00[CEU][hapmap]
rs10758731	1.00[CEU][hapmap]
rs10758732	1.00[CEU][hapmap]
rs10758734	1.00[CEU][hapmap]
rs10815330	1.00[CEU][hapmap]
rs10815335	1.00[CEU][hapmap]
rs1331378	1.00[CEU][hapmap]
rs1331379	1.00[CEU][hapmap]
rs1418740	1.00[CEU][hapmap]
rs1478940	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16923578	1.00[CEU][hapmap]
rs186913	1.00[CEU][hapmap]
rs2094756	0.91[EUR][1000 genomes]
rs2150703	1.00[CEU][hapmap]
rs2244053	1.00[CEU][hapmap]
rs2244058	1.00[CEU][hapmap]
rs2291055	1.00[CEU][hapmap]
rs2381360	1.00[CEU][hapmap]
rs343469	1.00[CEU][hapmap]
rs343471	1.00[CEU][hapmap]
rs343480	1.00[CEU][hapmap]
rs343482	1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs343500	1.00[CEU][hapmap]
rs3739649	1.00[CEU][hapmap]
rs404267	0.85[ASN][1000 genomes]
rs4265236	1.00[CEU][hapmap]
rs4389996	1.00[CEU][hapmap]
rs4395943	1.00[CEU][hapmap]
rs451361	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4740833	1.00[CEU][hapmap]
rs4742131	1.00[CEU][hapmap]
rs56705560	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56775903	0.90[EUR][1000 genomes]
rs57163723	1.00[EUR][1000 genomes]
rs58595478	1.00[EUR][1000 genomes]
rs6477017	1.00[CEU][hapmap]
rs6477024	1.00[CEU][hapmap]
rs7019606	1.00[CEU][hapmap]
rs7021498	1.00[CEU][hapmap]
rs7024130	1.00[CEU][hapmap]
rs7029833	1.00[CEU][hapmap]
rs7030731	1.00[CEU][hapmap]
rs7032130	1.00[CEU][hapmap]
rs7034210	1.00[CEU][hapmap]
rs7042947	1.00[CEU][hapmap]
rs7044750	1.00[CEU][hapmap]
rs73384317	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73384321	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73384330	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73384333	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73384336	1.00[EUR][1000 genomes]
rs73386610	1.00[EUR][1000 genomes]
rs73386628	1.00[EUR][1000 genomes]
rs73386637	1.00[EUR][1000 genomes]
rs73386652	1.00[EUR][1000 genomes]
rs73386655	1.00[EUR][1000 genomes]
rs73386657	1.00[EUR][1000 genomes]
rs73394748	1.00[EUR][1000 genomes]
rs73394754	1.00[EUR][1000 genomes]
rs7857802	0.91[EUR][1000 genomes]
rs7868062	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948847	chr9:5712626-6417677	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1031086	chr9:5806949-6630686	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv539967	chr9:5806949-6630686	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv1015450	chr9:5915640-6114652	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv613205	chr9:6032924-6332901	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6053000-6055200	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr9:6053200-6055400	Weak transcription	NHEK	skin
3	chr9:6053200-6055800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr9:6054200-6055200	Enhancers	GM12878-XiMat	blood
5	chr9:6054400-6055200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr9:6054800-6055200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr9:6054800-6055200	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr9:6054800-6055200	Enhancers	Brain Hippocampus Middle	brain
9	chr9:6054800-6055200	Enhancers	HUVEC	blood vessel
10	chr9:6054800-6055800	Enhancers	Primary neutrophils fromperipheralblood	blood
11	chr9:6054800-6056000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr9:6054800-6056000	Enhancers	Hela-S3	cervix
13	chr9:6054800-6056000	Enhancers	HMEC	breast
14	chr9:6055000-6055200	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr9:6055000-6056000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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