Variant report

Variant	rs3751588
Chromosome Location	chr15:51675389-51675390
allele	C/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:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:51674764..51675767-chr15:51789347..51790526,3	MCF-7	breast:
2	chr15:51666614..51670918-chr15:51672789..51675914,5	MCF-7	breast:
3	chr15:51632709..51634643-chr15:51673726..51675969,2	MCF-7	breast:
4	chr15:51578343..51581420-chr15:51671893..51675869,118	MCF-7	breast:
5	chr15:51654951..51657381-chr15:51671722..51675583,3	K562	blood:
6	chr15:51522009..51522700-chr15:51674749..51675600,2	MCF-7	breast:
7	chr15:51674679..51675595-chr15:51694683..51695865,4	MCF-7	breast:
8	chr15:51522970..51523470-chr15:51674634..51675614,2	MCF-7	breast:
9	chr15:51573553..51574678-chr15:51674522..51675665,6	MCF-7	breast:
10	chr15:51455138..51455670-chr15:51675223..51675907,2	K562	blood:
11	chr15:51425013..51425714-chr15:51674755..51675460,2	MCF-7	breast:
12	chr15:51577066..51580410-chr15:51672799..51675704,3	MCF-7	breast:
13	chr15:51673613..51676825-chr15:51677424..51680901,4	K562	blood:
14	chr15:51573305..51574188-chr15:51674448..51675433,3	MCF-7	breast:
15	chr15:51521669..51522596-chr15:51674755..51675695,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000186417	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10162847	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10162956	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10163098	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439124	0.80[ASN][1000 genomes]
rs12443092	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964315	0.80[ASN][1000 genomes]
rs16964316	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[LWK][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16964318	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964319	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2414103	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28385283	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28619121	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7162840	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7162857	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7174434	0.88[TSI][hapmap]
rs7178183	0.80[ASN][1000 genomes]
rs7178523	0.80[ASN][1000 genomes]
rs7178699	0.88[TSI][hapmap];0.80[ASN][1000 genomes]
rs764530	0.88[TSI][hapmap]
rs8032892	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8033404	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569400	chr15:50874964-51767265	ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	esv34532	chr15:51276128-51752856	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	esv2758382	chr15:51282257-51830339	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv2760031	chr15:51282257-51830339	Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv471243	chr15:51345485-52018096	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
6	esv2757600	chr15:51352249-51783981	Weak transcription Bivalent Enhancer Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
7	nsv904216	chr15:51631479-51739808	Bivalent Enhancer Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51640800-51676200	Weak transcription	Aorta	Aorta
2	chr15:51660200-51676200	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr15:51668000-51679000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr15:51672400-51678000	Weak transcription	Lung	lung
5	chr15:51672600-51676400	Weak transcription	Brain Germinal Matrix	brain
6	chr15:51672600-51691000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr15:51673600-51677800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr15:51673600-51688800	Weak transcription	Adipose Nuclei	Adipose
9	chr15:51673600-51694000	Weak transcription	Spleen	Spleen
10	chr15:51673800-51676200	Weak transcription	Brain Substantia Nigra	brain
11	chr15:51674000-51676600	Weak transcription	Brain Anterior Caudate	brain
12	chr15:51674400-51676200	Weak transcription	Brain Cingulate Gyrus	brain
13	chr15:51674400-51676200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr15:51674400-51677000	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr15:51674800-51675400	Enhancers	Brain Angular Gyrus	brain
16	chr15:51675000-51675400	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr15:51675000-51675400	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr15:51675000-51675400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr15:51675000-51675400	Enhancers	Placenta	Placenta
20	chr15:51675000-51675600	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr15:51675200-51675400	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr15:51675200-51675400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr15:51675200-51675400	Enhancers	A549	lung
24	chr15:51675200-51675600	Enhancers	Brain Hippocampus Middle	brain
25	chr15:51675200-51675800	Enhancers	iPS-18 Cell Line	embryonic stem cell
26	chr15:51675200-51675800	Enhancers	Fetal Muscle Trunk	muscle

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