Variant report

Variant	rs17169409
Chromosome Location	chr7:16340819-16340820
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10224948	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10234224	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10235920	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10243261	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10245613	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10250496	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10251007	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10251027	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10254098	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10261486	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10274297	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10277459	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10278547	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11974846	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11981685	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17169410	0.93[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17169415	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28468590	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28508309	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28793604	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4517017	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55665993	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57850085	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73684122	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73684128	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73684158	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

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	nsv1016642	chr7:15884061-16799788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv948950	chr7:16168925-16395434	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	esv2759514	chr7:16236162-16527390	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1022388	chr7:16251992-16431864	Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	esv2758105	chr7:16272822-16527390	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:16313600-16348200	Weak transcription	Gastric	stomach
2	chr7:16333400-16349000	Weak transcription	Psoas Muscle	Psoas
3	chr7:16335400-16343800	Weak transcription	K562	blood
4	chr7:16339000-16341200	Enhancers	Fetal Lung	lung
5	chr7:16339200-16341200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr7:16339800-16342400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr7:16340600-16341200	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr7:16340600-16341200	Enhancers	Fetal Kidney	kidney
9	chr7:16340800-16341200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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