Variant report

Variant	rs2959925
Chromosome Location	chr15:72600493-72600494
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:72599410..72601357-chr15:72604613..72606396,2	MCF-7	breast:
2	chr15:72562781..72564885-chr15:72599473..72602023,2	MCF-7	breast:
3	chr15:72564706..72566745-chr15:72598121..72601390,3	K562	blood:

Variant related genes	Relation type
ENSG00000137817	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10152588	0.84[AMR][1000 genomes]
rs10220850	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs10220917	1.00[MEX][hapmap]
rs10518987	1.00[CEU][hapmap]
rs11072357	1.00[YRI][hapmap];0.98[AFR][1000 genomes]
rs11632505	1.00[CEU][hapmap]
rs12324592	0.88[MEX][hapmap]
rs12324744	1.00[CEU][hapmap]
rs12904378	1.00[CEU][hapmap]
rs12906612	1.00[CEU][hapmap]
rs12906942	1.00[CEU][hapmap]
rs12907707	1.00[CEU][hapmap]
rs12908883	1.00[CEU][hapmap]
rs12909590	1.00[CEU][hapmap]
rs12911285	1.00[CEU][hapmap]
rs12916039	1.00[CEU][hapmap]
rs1426169	1.00[CEU][hapmap]
rs1972692	0.89[MEX][hapmap]
rs2009365	0.89[AMR][1000 genomes]
rs2162236	1.00[MEX][hapmap];0.81[AMR][1000 genomes]
rs2288257	1.00[CEU][hapmap]
rs28435418	0.89[AMR][1000 genomes]
rs28562796	0.95[AMR][1000 genomes]
rs28712686	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2912211	0.88[MEX][hapmap]
rs2912220	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2912221	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2912222	1.00[CEU][hapmap]
rs2912223	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2912224	1.00[CEU][hapmap]
rs2912225	1.00[CEU][hapmap]
rs2959916	1.00[CEU][hapmap]
rs2959918	1.00[CEU][hapmap]
rs2959919	1.00[CEU][hapmap]
rs2959922	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959926	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959933	1.00[CEU][hapmap]
rs2959935	1.00[CEU][hapmap]
rs2959938	0.87[AFR][1000 genomes]
rs3743227	1.00[CEU][hapmap]
rs3759901	1.00[CEU][hapmap]
rs4776591	0.98[AFR][1000 genomes]
rs4776592	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs4776593	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs4777501	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs55792138	0.97[AFR][1000 genomes]
rs59262103	0.89[AMR][1000 genomes]
rs60790003	0.89[AMR][1000 genomes]
rs6494999	0.95[AMR][1000 genomes]
rs6495000	0.95[YRI][hapmap];0.88[AFR][1000 genomes]
rs6495002	1.00[MEX][hapmap]
rs7175677	0.89[AMR][1000 genomes]
rs7179350	0.95[AMR][1000 genomes]
rs7182307	0.89[AMR][1000 genomes]
rs8026600	0.98[AFR][1000 genomes]
rs9672916	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9806204	1.00[CEU][hapmap]
rs9806212	0.88[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431395	chr15:72266174-72701777	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
3	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72566000-72611400	Weak transcription	Right Ventricle	heart
2	chr15:72567000-72611800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr15:72573200-72603000	Weak transcription	Fetal Intestine Large	intestine
4	chr15:72578000-72611800	Weak transcription	Ovary	ovary
5	chr15:72579600-72602400	Weak transcription	Primary T cells from cord blood	blood
6	chr15:72582000-72608000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:72582000-72611800	Weak transcription	Spleen	Spleen
8	chr15:72583800-72611600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr15:72590200-72604800	Weak transcription	Aorta	Aorta
10	chr15:72590600-72607600	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr15:72590800-72602000	Weak transcription	Left Ventricle	heart
12	chr15:72595400-72604600	Weak transcription	Lung	lung
13	chr15:72596000-72612400	Weak transcription	Adipose Nuclei	Adipose
14	chr15:72597600-72605800	Weak transcription	Fetal Intestine Small	intestine
15	chr15:72599200-72611400	Weak transcription	Brain Hippocampus Middle	brain
16	chr15:72599200-72611600	Weak transcription	Brain Cingulate Gyrus	brain
17	chr15:72599400-72610800	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr15:72600000-72610400	Weak transcription	Brain Angular Gyrus	brain
19	chr15:72600000-72611600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr15:72600200-72606400	Weak transcription	Brain Anterior Caudate	brain
21	chr15:72600200-72607800	Weak transcription	Fetal Brain Female	brain
22	chr15:72600400-72604200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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