Variant report

Variant	rs4896463
Chromosome Location	chr6:139811404-139811405
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:139811168..139812845-chr6:139833635..139836382,2	K562	blood:
2	chr6:139809853..139812298-chr6:139813287..139815941,2	MCF-7	breast:
3	chr6:139755279..139757634-chr6:139809229..139811607,2	K562	blood:
4	chr6:139805921..139807747-chr6:139809317..139811941,2	K562	blood:
5	chr6:139695107..139696617-chr6:139811370..139813177,2	MCF-7	breast:
6	chr6:139697154..139699133-chr6:139810581..139812595,2	K562	blood:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10872516	0.83[AMR][1000 genomes]
rs11155070	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1468708	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1468709	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2908513	0.84[JPT][hapmap]
rs3010286	0.92[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs3010288	0.87[ASN][1000 genomes]
rs4896461	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4896464	0.82[AMR][1000 genomes]
rs6570344	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6907607	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6916887	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6923416	0.88[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6926031	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7770257	0.83[AMR][1000 genomes]
rs9376420	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9376421	0.83[AMR][1000 genomes]
rs9376422	0.83[AMR][1000 genomes]
rs9376423	0.83[AMR][1000 genomes]
rs9389689	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs9399282	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403080	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403082	0.83[AMR][1000 genomes]
rs9403083	0.83[AMR][1000 genomes]
rs9403084	0.88[JPT][hapmap];0.83[AMR][1000 genomes]
rs9495502	0.84[JPT][hapmap];0.83[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:139804000-139818200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:139807800-139811600	Weak transcription	Fetal Kidney	kidney
3	chr6:139810800-139812000	Enhancers	K562	blood
4	chr6:139811200-139811800	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr6:139811200-139811800	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr6:139811200-139812000	Enhancers	HepG2	liver
7	chr6:139811200-139812200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr6:139811200-139812200	Enhancers	Pancreatic Islets	Pancreatic Islet
9	chr6:139811200-139812400	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr6:139811400-139811600	Flanking Active TSS	Liver	Liver
11	chr6:139811400-139811600	Active TSS	Monocytes-CD14+_RO01746	blood
12	chr6:139811400-139811800	Enhancers	Primary B cells from peripheral blood	blood
13	chr6:139811400-139811800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
14	chr6:139811400-139812000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr6:139811400-139812000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:139811400-139812000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
17	chr6:139811400-139812000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr6:139811400-139812400	Enhancers	Rectal Mucosa Donor 31	rectum

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