Variant report

Variant	rs16969384
Chromosome Location	chr15:39908800-39908801
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:39899166..39901640-chr15:39907361..39909302,2	MCF-7	breast:
2	chr15:39894910..39896472-chr15:39906886..39909258,2	MCF-7	breast:
3	chr15:39876322..39882916-chr15:39908249..39913734,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137801	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10083552	1.00[EUR][1000 genomes]
rs16969307	1.00[EUR][1000 genomes]
rs16969364	0.85[YRI][hapmap];0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16969365	0.85[YRI][hapmap];0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16969484	1.00[EUR][1000 genomes]
rs16969573	1.00[EUR][1000 genomes]
rs41376748	1.00[EUR][1000 genomes]
rs41406047	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs41515347	1.00[EUR][1000 genomes]
rs58677957	1.00[EUR][1000 genomes]
rs58716252	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59146042	1.00[EUR][1000 genomes]
rs61040173	1.00[EUR][1000 genomes]
rs7163020	0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs7166437	1.00[AMR][1000 genomes]
rs7172057	0.93[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74008705	1.00[EUR][1000 genomes]
rs8023525	1.00[EUR][1000 genomes]
rs8029417	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8030643	0.86[YRI][hapmap];0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8031289	1.00[EUR][1000 genomes]
rs8033803	1.00[EUR][1000 genomes]
rs8035627	1.00[EUR][1000 genomes]
rs8043342	1.00[EUR][1000 genomes]
rs878941	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv832977	chr15:39817512-39981520	Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv1048628	chr15:39877498-39940104	Enhancers Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv1502	chr15:39884314-39928968	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
8	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 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	chr15:39904000-39913400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr15:39906200-39908800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr15:39906600-39916000	Weak transcription	Stomach Smooth Muscle	stomach
4	chr15:39908000-39909800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr15:39908400-39909800	Enhancers	HUVEC	blood vessel
6	chr15:39908600-39908800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr15:39908600-39909200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
8	chr15:39908600-39909200	Flanking Active TSS	HMEC	breast
9	chr15:39908600-39909200	Flanking Active TSS	NHEK	skin
10	chr15:39908600-39910800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr15:39908800-39909200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr15:39908800-39909200	Enhancers	A549	lung
13	chr15:39908800-39911400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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