Variant report

Variant	rs9380026
Chromosome Location	chr6:27842693-27842694
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:57920063..57922392-chr6:27841925..27843935,2	MCF-7	breast:
2	chr6:26030829..26032499-chr6:27840625..27843168,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000124693	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs1015075	0.82[JPT][hapmap]
rs12174918	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16867962	1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs169287	0.93[ASN][1000 genomes]
rs175597	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17693877	1.00[CHB][hapmap]
rs183225	1.00[JPT][hapmap]
rs200466	1.00[JPT][hapmap]
rs200469	1.00[JPT][hapmap]
rs200473	1.00[JPT][hapmap]
rs200479	1.00[JPT][hapmap]
rs200481	0.84[ASN][1000 genomes]
rs200482	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs200483	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs200484	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs200485	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs200488	0.93[ASN][1000 genomes]
rs200489	0.93[ASN][1000 genomes]
rs200490	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs200497	0.91[ASN][1000 genomes]
rs200498	0.88[ASN][1000 genomes]
rs200499	0.86[ASN][1000 genomes]
rs200501	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs200948	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs200949	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs200950	0.98[ASN][1000 genomes]
rs200952	0.98[ASN][1000 genomes]
rs200953	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs200954	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs200964	0.93[ASN][1000 genomes]
rs200965	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs200966	0.93[ASN][1000 genomes]
rs200968	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs200973	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs200974	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs200975	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs200976	0.93[ASN][1000 genomes]
rs200977	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs200979	0.95[ASN][1000 genomes]
rs200980	0.95[ASN][1000 genomes]
rs200981	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs200983	0.93[ASN][1000 genomes]
rs200989	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs200990	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs200992	0.91[ASN][1000 genomes]
rs200995	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs200996	0.93[ASN][1000 genomes]
rs201002	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2277104	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2394001	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2747054	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs34295134	0.93[ASN][1000 genomes]
rs36108923	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs370155	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs390764	0.91[ASN][1000 genomes]
rs401754	0.91[ASN][1000 genomes]
rs401763	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4711161	1.00[EUR][1000 genomes]
rs4713117	1.00[EUR][1000 genomes]
rs4713122	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4713124	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4713127	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs483143	0.91[ASN][1000 genomes]
rs493161	1.00[ASN][1000 genomes]
rs494887	0.95[ASN][1000 genomes]
rs557042	1.00[ASN][1000 genomes]
rs56870390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59015666	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs666846	1.00[JPT][hapmap]
rs904142	0.82[JPT][hapmap]
rs9348779	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9357052	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368531	0.91[ASN][1000 genomes]
rs9368534	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9368535	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9368536	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9368537	0.82[JPT][hapmap]
rs9380009	1.00[EUR][1000 genomes]
rs9380013	1.00[EUR][1000 genomes]
rs9380014	1.00[EUR][1000 genomes]
rs9380015	1.00[EUR][1000 genomes]
rs9380018	0.84[ASN][1000 genomes]
rs9380028	0.82[JPT][hapmap]
rs9380030	0.82[JPT][hapmap]
rs9393854	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs9393855	1.00[EUR][1000 genomes]
rs9393858	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9393862	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9393866	0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022797	chr6:27396961-27864277	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	390 gene(s)	inside rSNPs	diseases
2	nsv432858	chr6:27719375-28011652	Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	387 gene(s)	inside rSNPs	diseases
3	nsv1017440	chr6:27734824-27864277	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	370 gene(s)	inside rSNPs	diseases
4	nsv1022173	chr6:27734824-27959408	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
5	nsv883512	chr6:27748631-27969004	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
6	nsv601208	chr6:27810626-27969004	Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	237 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27839000-27842800	Active TSS	ES-I3 Cell Line	embryonic stem cell
2	chr6:27841800-27843800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:27841800-27847000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:27842200-27857000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:27842400-27842800	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr6:27842400-27843000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:27842400-27844000	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr6:27842400-27844200	Enhancers	Dnd41	blood
9	chr6:27842400-27844400	Enhancers	Fetal Thymus	thymus
10	chr6:27842400-27847400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:27842400-27850600	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr6:27842600-27842800	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr6:27842600-27855600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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