Variant report

Variant	rs4715471
Chromosome Location	chr6:54585750-54585751
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:54583583..54586469-chr6:54727325..54729845,2	MCF-7	breast:
2	chr6:54583465..54585924-chr6:54724133..54726618,2	MCF-7	breast:
3	chr6:54585487..54587893-chr6:54738565..54741108,3	MCF-7	breast:
4	chr6:54584974..54587110-chr6:54788503..54790985,2	MCF-7	breast:
5	chr6:54561293..54570100-chr6:54582505..54590247,14	MCF-7	breast:
6	chr6:54580831..54596896-chr6:54704751..54716103,89	MCF-7	breast:
7	chr6:54581970..54584648-chr6:54584800..54586441,2	MCF-7	breast:
8	chr6:54577593..54590845-chr6:54708062..54715554,67	MCF-7	breast:
9	chr6:54582713..54585752-chr6:54741876..54745709,4	MCF-7	breast:
10	chr6:54585158..54588149-chr6:54741239..54743201,2	MCF-7	breast:
11	chr6:54581587..54585941-chr6:54586924..54591451,7	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000224984	Chromatin interaction
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10085187	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1018140	0.91[ASN][1000 genomes]
rs1039694	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1039695	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10738112	0.84[ASN][1000 genomes]
rs10738113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10807478	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs10948832	0.91[ASN][1000 genomes]
rs12210278	0.91[ASN][1000 genomes]
rs12662500	0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1280714	0.81[ASN][1000 genomes]
rs1280716	0.81[ASN][1000 genomes]
rs1354308	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1393859	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1395626	0.94[ASN][1000 genomes]
rs1415875	0.84[ASN][1000 genomes]
rs1507111	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1572594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1827514	0.80[ASN][1000 genomes]
rs1830662	0.81[ASN][1000 genomes]
rs1983141	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2047828	0.81[ASN][1000 genomes]
rs2297805	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4094928	1.00[CEU][hapmap];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];0.97[ASN][1000 genomes]
rs4106094	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4712067	1.00[CHB][hapmap]
rs4715465	0.84[ASN][1000 genomes]
rs4715473	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs542639	0.88[ASN][1000 genomes]
rs58010645	0.97[ASN][1000 genomes]
rs62414317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6459022	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[ASN][1000 genomes]
rs6906010	0.97[ASN][1000 genomes]
rs6907631	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6909103	0.87[CEU][hapmap];0.94[ASN][1000 genomes]
rs6916459	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs6928097	0.84[ASN][1000 genomes]
rs6934405	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7739195	1.00[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739425	1.00[CEU][hapmap];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];1.00[ASN][1000 genomes]
rs7747427	0.89[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7759470	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7759660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7770733	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771107	0.84[ASN][1000 genomes]
rs7772650	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7773277	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs925053	0.95[ASN][1000 genomes]
rs925054	0.97[ASN][1000 genomes]
rs9296765	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9296767	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9370324	0.81[ASN][1000 genomes]
rs9464125	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9464130	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9464131	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9474954	0.94[ASN][1000 genomes]
rs9474955	0.83[CHB][hapmap]
rs9474956	0.82[CHB][hapmap]
rs9474975	0.85[ASN][1000 genomes]
rs9474976	0.90[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9474981	0.94[ASN][1000 genomes]
rs9474984	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9474985	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9474986	0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs962307	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs981683	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9918378	0.90[AFR][1000 genomes];0.94[ASN][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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54583600-54594200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:54583800-54585800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr6:54583800-54586600	Weak transcription	NHEK	skin
4	chr6:54584000-54585800	Weak transcription	Fetal Intestine Large	intestine
5	chr6:54584000-54586600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:54584600-54586400	Weak transcription	HMEC	breast
7	chr6:54584600-54586600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:54585200-54587200	Enhancers	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links