Variant report

Variant	rs10083552
Chromosome Location	chr15:39948862-39948863
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:39947922..39949877-chr15:39956880..39959494,2	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10520141	1.00[JPT][hapmap]
rs10520143	1.00[JPT][hapmap]
rs10520145	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10520146	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10520148	0.86[ASN][1000 genomes]
rs10520152	1.00[JPT][hapmap]
rs12324682	1.00[JPT][hapmap]
rs16969307	1.00[EUR][1000 genomes]
rs16969335	1.00[JPT][hapmap]
rs16969338	1.00[JPT][hapmap]
rs16969352	1.00[JPT][hapmap]
rs16969364	1.00[EUR][1000 genomes]
rs16969365	1.00[EUR][1000 genomes]
rs16969384	1.00[EUR][1000 genomes]
rs16969484	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16969487	1.00[JPT][hapmap]
rs16969547	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs16969573	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16969678	1.00[ASN][1000 genomes]
rs17706083	1.00[JPT][hapmap]
rs1994380	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2129457	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2411316	1.00[JPT][hapmap]
rs2618165	1.00[JPT][hapmap]
rs28735552	0.86[ASN][1000 genomes]
rs28785006	0.86[ASN][1000 genomes]
rs34878675	0.86[ASN][1000 genomes]
rs4085744	0.86[ASN][1000 genomes]
rs41376748	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs41406047	1.00[EUR][1000 genomes]
rs41515347	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4291886	0.83[ASN][1000 genomes]
rs4322636	1.00[ASN][1000 genomes]
rs4415979	1.00[JPT][hapmap]
rs4503768	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs58677957	1.00[EUR][1000 genomes]
rs58716252	1.00[EUR][1000 genomes]
rs59146042	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60228643	0.86[ASN][1000 genomes]
rs61040173	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7163020	1.00[EUR][1000 genomes]
rs7172057	1.00[EUR][1000 genomes]
rs72727029	0.86[ASN][1000 genomes]
rs74008705	1.00[EUR][1000 genomes]
rs8023525	1.00[EUR][1000 genomes]
rs8029417	1.00[EUR][1000 genomes]
rs8030643	1.00[EUR][1000 genomes]
rs8031289	1.00[EUR][1000 genomes]
rs8033803	1.00[EUR][1000 genomes]
rs8035627	1.00[EUR][1000 genomes]
rs8036035	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs8043342	1.00[EUR][1000 genomes]
rs878941	1.00[EUR][1000 genomes]
rs880270	1.00[JPT][hapmap]
rs9972350	1.00[JPT][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:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39938000-39950000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr15:39938000-39957600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:39938200-39950800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr15:39944800-39955600	Weak transcription	Fetal Lung	lung
5	chr15:39945000-39949400	Weak transcription	HSMMtube	muscle
6	chr15:39948400-39956000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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