Variant report

Variant	rs28495843
Chromosome Location	chr10:5636434-5636435
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:5634973..5639659-chr10:5649443..5654538,7	MCF-7	breast:
2	chr10:5592839..5594625-chr10:5635555..5637681,2	MCF-7	breast:
3	chr10:5488551..5493324-chr10:5634966..5640778,7	K562	blood:
4	chr10:5614636..5617261-chr10:5635762..5637348,3	K562	blood:
5	chr10:5636158..5637670-chr10:5644195..5645810,2	K562	blood:
6	chr10:5629660..5633537-chr10:5634085..5636643,3	K562	blood:
7	chr10:5624590..5636573-chr10:5652742..5661113,15	MCF-7	breast:

Variant related genes	Relation type
ENSG00000173848	Chromatin interaction
ENSG00000231483	Chromatin interaction
ENSG00000228951	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10466300	0.86[JPT][hapmap]
rs10466301	0.83[JPT][hapmap]
rs1106413	0.85[EUR][1000 genomes]
rs12242788	1.00[CHB][hapmap];0.94[CHD][hapmap];0.83[JPT][hapmap];0.89[MEX][hapmap];1.00[YRI][hapmap];0.90[ASN][1000 genomes]
rs12765374	1.00[JPT][hapmap]
rs2380195	0.95[CEU][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs4075309	0.94[CEU][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4570487	0.84[CEU][hapmap];0.97[TSI][hapmap];0.84[EUR][1000 genomes]
rs4747897	0.83[JPT][hapmap]
rs4747904	0.90[JPT][hapmap]
rs4747914	0.83[JPT][hapmap]
rs4750462	0.83[JPT][hapmap]
rs7392864	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7477661	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7896428	0.83[JPT][hapmap]
rs7917232	0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534685	chr10:4914018-5853324	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers 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 miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv932104	chr10:5203626-5641023	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
3	nsv1054865	chr10:5225305-5638119	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking 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	45 gene(s)	inside rSNPs	diseases
4	nsv831774	chr10:5463556-5657421	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
5	nsv894798	chr10:5503610-5670275	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
6	nsv523491	chr10:5542109-5720067	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
7	esv2757364	chr10:5557024-5720512	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
8	esv2759729	chr10:5557024-5804780	Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs28495843	C10orf18	cis	cerebellum	SCAN

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5627400-5639400	Enhancers	Fetal Muscle Leg	muscle
2	chr10:5632200-5636800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr10:5632400-5636600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr10:5632400-5636600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr10:5632400-5636600	Weak transcription	NHEK	skin
6	chr10:5632400-5637000	Weak transcription	K562	blood
7	chr10:5633800-5636600	Weak transcription	Fetal Intestine Large	intestine
8	chr10:5633800-5637000	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr10:5633800-5641600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:5634200-5638200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr10:5634400-5636600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr10:5634400-5636600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:5634400-5636600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr10:5634800-5636600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr10:5634800-5637400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr10:5634800-5651200	Weak transcription	Pancreas	Pancrea
17	chr10:5635600-5637600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr10:5635800-5636600	Enhancers	Placenta	Placenta
19	chr10:5636000-5636800	Enhancers	Primary B cells from peripheral blood	blood
20	chr10:5636000-5636800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
21	chr10:5636000-5637800	Enhancers	Fetal Muscle Trunk	muscle
22	chr10:5636000-5638600	Enhancers	Fetal Thymus	thymus
23	chr10:5636000-5638800	Enhancers	Fetal Stomach	stomach
24	chr10:5636000-5639200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr10:5636000-5639800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
26	chr10:5636200-5636600	Enhancers	Primary B cells from cord blood	blood
27	chr10:5636200-5636800	Enhancers	Adipose Nuclei	Adipose
28	chr10:5636200-5636800	Enhancers	Lung	lung
29	chr10:5636200-5637000	Enhancers	Fetal Lung	lung
30	chr10:5636200-5637000	Enhancers	Osteobl	bone
31	chr10:5636200-5637200	Enhancers	Right Ventricle	heart
32	chr10:5636200-5637200	Enhancers	HMEC	breast
33	chr10:5636200-5637400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr10:5636200-5637400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr10:5636200-5637400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr10:5636200-5637600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr10:5636200-5637600	Enhancers	HUVEC	blood vessel
38	chr10:5636200-5637800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr10:5636200-5638000	Flanking Active TSS	NHDF-Ad	bronchial
40	chr10:5636200-5638200	Enhancers	Primary T cells from cord blood	blood
41	chr10:5636200-5638200	Enhancers	Hela-S3	cervix
42	chr10:5636200-5638600	Enhancers	Fetal Kidney	kidney
43	chr10:5636200-5639000	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr10:5636200-5639400	Enhancers	ES-I3 Cell Line	embryonic stem cell
45	chr10:5636200-5639800	Enhancers	Fetal Heart	heart
46	chr10:5636200-5639800	Enhancers	Placenta Amnion	Placenta Amnion
47	chr10:5636400-5636600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr10:5636400-5636800	Enhancers	Left Ventricle	heart
49	chr10:5636400-5637000	Enhancers	Aorta	Aorta
50	chr10:5636400-5637200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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