Variant report

Variant	rs16969527
Chromosome Location	chr15:39961635-39961636
allele	A/T
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:39922048..39922709-chr15:39960306..39961692,3	MCF-7	breast:
2	chr15:39959771..39962008-chr15:40012951..40014930,2	MCF-7	breast:
3	chr15:39920700..39923129-chr15:39958970..39962199,4	MCF-7	breast:
4	chr15:39870612..39877795-chr15:39952369..39962860,18	MCF-7	breast:
5	chr15:39913171..39923947-chr15:39954798..39966806,32	MCF-7	breast:
6	chr15:39926188..39928117-chr15:39960668..39962621,2	MCF-7	breast:
7	chr15:39892943..39897047-chr15:39958260..39961815,3	MCF-7	breast:
8	chr15:39960300..39964337-chr15:39967513..39971099,4	K562	blood:
9	chr15:39961034..39963192-chr15:39965564..39967491,2	MCF-7	breast:
10	chr15:39960868..39962395-chr15:39964357..39966165,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000150667	Chromatin interaction
ENSG00000137801	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1166714	1.00[ASN][1000 genomes]
rs11854571	1.00[CEU][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12899512	1.00[CEU][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12906874	1.00[CEU][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12911910	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12912555	1.00[CEU][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12914638	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12915867	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16969537	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs16969551	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs16969563	0.90[YRI][hapmap]
rs16969824	1.00[ASN][1000 genomes]
rs16969826	1.00[ASN][1000 genomes]
rs17712446	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34118678	1.00[ASN][1000 genomes]
rs34253013	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34565631	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34775207	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4142520	0.90[EUR][1000 genomes]
rs4641712	1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs55968896	1.00[ASN][1000 genomes]
rs62002390	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62002419	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62002435	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs639230	1.00[ASN][1000 genomes]
rs74008878	1.00[ASN][1000 genomes]
rs8034520	1.00[CEU][hapmap]

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	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	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:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39959400-39962800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:39960200-39962400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:39960200-39964400	Weak transcription	HSMM	muscle
4	chr15:39960200-39972600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr15:39960800-39962200	Enhancers	Rectal Smooth Muscle	rectum
6	chr15:39960800-39963000	Enhancers	Fetal Lung	lung
7	chr15:39961000-39964200	Weak transcription	HSMMtube	muscle
8	chr15:39961200-39961800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
9	chr15:39961400-39962000	Enhancers	Fetal Kidney	kidney
10	chr15:39961600-39964200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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