Variant report

Variant	rs16964735
Chromosome Location	chr15:52387585-52387586
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52309194..52314432-chr15:52385325..52393461,10	MCF-7	breast:
2	chr15:52385922..52387703-chr15:52408250..52411137,2	MCF-7	breast:
3	chr15:52385731..52388322-chr15:52391743..52394058,2	MCF-7	breast:
4	chr15:52262398..52265193-chr15:52386264..52389426,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259438	Chromatin interaction
ENSG00000259712	Chromatin interaction
ENSG00000069956	Chromatin interaction
ENSG00000259327	Chromatin interaction
ENSG00000166477	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10400852	1.00[EUR][1000 genomes]
rs12443497	1.00[TSI][hapmap]
rs16953085	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16964737	1.00[EUR][1000 genomes]
rs16964750	1.00[EUR][1000 genomes]
rs16964770	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs2231296	1.00[EUR][1000 genomes]
rs28656256	1.00[EUR][1000 genomes]
rs28663157	1.00[EUR][1000 genomes]
rs41494446	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59195841	1.00[EUR][1000 genomes]
rs59289747	1.00[EUR][1000 genomes]
rs60397096	1.00[EUR][1000 genomes]
rs7163133	1.00[EUR][1000 genomes]
rs7164357	1.00[EUR][1000 genomes]
rs7165157	1.00[EUR][1000 genomes]
rs7165527	1.00[EUR][1000 genomes]
rs7165708	1.00[EUR][1000 genomes]
rs7167133	1.00[EUR][1000 genomes]
rs7171700	1.00[EUR][1000 genomes]
rs7172434	1.00[MEX][hapmap]
rs7172939	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7178038	1.00[EUR][1000 genomes]
rs730945	1.00[EUR][1000 genomes]
rs73402803	1.00[EUR][1000 genomes]
rs73402824	1.00[EUR][1000 genomes]
rs73402826	1.00[EUR][1000 genomes]
rs73402833	1.00[EUR][1000 genomes]
rs73402839	1.00[EUR][1000 genomes]
rs73402853	1.00[EUR][1000 genomes]
rs73402859	1.00[EUR][1000 genomes]
rs73402869	1.00[EUR][1000 genomes]
rs73402879	1.00[EUR][1000 genomes]
rs73404813	1.00[EUR][1000 genomes]
rs8023921	1.00[EUR][1000 genomes]
rs8024311	1.00[EUR][1000 genomes]
rs8024767	1.00[EUR][1000 genomes]
rs8035146	1.00[EUR][1000 genomes]
rs8040458	1.00[EUR][1000 genomes]
rs8041042	1.00[EUR][1000 genomes]
rs8041128	1.00[EUR][1000 genomes]
rs8041233	1.00[EUR][1000 genomes]
rs8041355	1.00[EUR][1000 genomes]
rs8041504	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530681	chr15:52297253-52390470	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv471244	chr15:52305463-52511465	Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv984198	chr15:52319726-52481137	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1054372	chr15:52369078-52579464	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv542387	chr15:52369078-52579464	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52384600-52387600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:52384800-52387600	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr15:52384800-52388200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr15:52385000-52387600	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr15:52385000-52387800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr15:52385000-52387800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr15:52385000-52387800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr15:52385000-52387800	Enhancers	NHLF	lung
9	chr15:52385000-52388400	Enhancers	HMEC	breast
10	chr15:52385200-52387600	Enhancers	Fetal Muscle Leg	muscle
11	chr15:52385200-52387600	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr15:52385400-52387600	Enhancers	Colon Smooth Muscle	Colon
13	chr15:52385400-52387600	Enhancers	Duodenum Smooth Muscle	Duodenum
14	chr15:52385400-52387600	Enhancers	Skeletal Muscle Male	skeletal muscle
15	chr15:52385400-52387600	Flanking Active TSS	NHDF-Ad	bronchial
16	chr15:52385400-52387800	Enhancers	Ovary	ovary
17	chr15:52385400-52387800	Flanking Active TSS	Hela-S3	cervix
18	chr15:52385600-52387800	Enhancers	Sigmoid Colon	Sigmoid Colon
19	chr15:52385600-52388000	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr15:52385800-52387600	Enhancers	Colonic Mucosa	Colon
21	chr15:52385800-52387600	Enhancers	Spleen	Spleen
22	chr15:52385800-52395400	Weak transcription	Fetal Kidney	kidney
23	chr15:52386000-52387600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr15:52386000-52387600	Enhancers	Esophagus	oesophagus
25	chr15:52386000-52387600	Enhancers	Fetal Intestine Large	intestine
26	chr15:52386000-52387600	Enhancers	Monocytes-CD14+_RO01746	blood
27	chr15:52386000-52388400	Enhancers	Adipose Nuclei	Adipose
28	chr15:52386200-52387600	Enhancers	NH-A	brain
29	chr15:52386200-52388000	Enhancers	HUVEC	blood vessel
30	chr15:52386200-52399000	Weak transcription	Rectal Smooth Muscle	rectum
31	chr15:52386400-52387600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
32	chr15:52386400-52387800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr15:52386400-52391000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr15:52386600-52387800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr15:52386600-52388400	Enhancers	GM12878-XiMat	blood
36	chr15:52386600-52389400	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr15:52386600-52389400	Weak transcription	Primary hematopoietic stem cells	blood
38	chr15:52386600-52390800	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr15:52386600-52393000	Weak transcription	Right Atrium	heart
40	chr15:52386800-52387800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr15:52386800-52388600	Enhancers	Osteobl	bone
42	chr15:52386800-52390600	Weak transcription	Liver	Liver
43	chr15:52386800-52392600	Weak transcription	Placenta	Placenta
44	chr15:52387000-52387600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr15:52387000-52387600	Enhancers	Gastric	stomach
46	chr15:52387000-52388000	Enhancers	HSMM	muscle
47	chr15:52387200-52387600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr15:52387200-52387800	Weak transcription	Aorta	Aorta
49	chr15:52387200-52390400	Weak transcription	HepG2	liver
50	chr15:52387400-52387600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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