Variant report

Variant	rs8028749
Chromosome Location	chr15:73884708-73884709
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73883878..73886307-chr15:73924446..73926967,3	MCF-7	breast:
2	chr15:73884268..73887055-chr15:73887297..73890115,2	K562	blood:
3	chr15:73872462..73876250-chr15:73883404..73887216,4	MCF-7	breast:
4	chr15:73877182..73878738-chr15:73883851..73886514,2	K562	blood:
5	chr15:73884170..73887060-chr15:73925275..73926977,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000156642	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10152645	0.88[JPT][hapmap]
rs10162605	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10163172	0.86[EUR][1000 genomes]
rs1044581	0.88[JPT][hapmap]
rs11072433	0.88[JPT][hapmap]
rs11574484	0.88[JPT][hapmap]
rs11574485	0.88[JPT][hapmap]
rs11638472	0.82[EUR][1000 genomes]
rs11854138	0.82[CEU][hapmap];0.81[GIH][hapmap]
rs11854774	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11856313	0.81[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12324832	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12908815	0.86[EUR][1000 genomes]
rs13380155	1.00[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];0.84[EUR][1000 genomes]
rs13380245	0.82[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];0.86[EUR][1000 genomes]
rs1481087	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.87[TSI][hapmap];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16957919	0.80[EUR][1000 genomes]
rs16957997	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16958019	1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16958025	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16958041	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16958050	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2291012	0.88[JPT][hapmap]
rs2291014	0.88[JPT][hapmap]
rs2306462	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2415153	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28834466	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3889590	0.82[EUR][1000 genomes]
rs55636021	0.86[EUR][1000 genomes]
rs55695286	0.86[EUR][1000 genomes]
rs56190024	0.86[EUR][1000 genomes]
rs56227598	0.82[EUR][1000 genomes]
rs57995256	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60419012	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6495066	0.82[EUR][1000 genomes]
rs7163212	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7163693	0.85[CEU][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7164953	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7165447	0.82[CEU][hapmap];0.90[CHB][hapmap];0.88[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7166673	0.81[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7169976	0.85[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap];0.86[EUR][1000 genomes]
rs7172448	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7173068	0.82[EUR][1000 genomes]
rs7176174	0.88[JPT][hapmap]
rs7176452	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7176484	0.88[JPT][hapmap]
rs7176701	0.88[JPT][hapmap]
rs7177731	0.85[CEU][hapmap];0.95[GIH][hapmap];0.82[MEX][hapmap]
rs7177814	0.88[JPT][hapmap]
rs7178133	0.88[JPT][hapmap]
rs7178806	0.90[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7182876	0.88[JPT][hapmap]
rs729155	0.91[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.87[TSI][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8027255	0.82[EUR][1000 genomes]
rs8032265	0.82[CEU][hapmap];0.81[GIH][hapmap]
rs8033242	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.85[TSI][hapmap];0.94[EUR][1000 genomes]
rs8036438	0.85[CEU][hapmap]
rs8039862	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8040552	0.89[ASN][1000 genomes]
rs899271	0.88[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037540	chr15:73712637-73982420	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS 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	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73847400-73893200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:73848800-73884800	Strong transcription	Primary T helper cells fromperipheralblood	blood
3	chr15:73848800-73885000	Strong transcription	Primary B cells from cord blood	blood
4	chr15:73857400-73884800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr15:73857600-73885000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr15:73858000-73884800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:73858200-73885800	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr15:73860600-73885000	Strong transcription	Primary T helper cells PMA-I stimulated	--
9	chr15:73862200-73884800	Strong transcription	Fetal Muscle Trunk	muscle
10	chr15:73863200-73889400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr15:73866800-73884800	Strong transcription	Fetal Muscle Leg	muscle
12	chr15:73870400-73887000	Strong transcription	Primary T cells from cord blood	blood
13	chr15:73871600-73886000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr15:73871600-73886400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr15:73871600-73887400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr15:73871800-73884800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr15:73872000-73884800	Strong transcription	Rectal Mucosa Donor 29	rectum
18	chr15:73873200-73888800	Strong transcription	NHEK	skin
19	chr15:73874000-73884800	Strong transcription	Fetal Stomach	stomach
20	chr15:73876000-73885800	Weak transcription	Stomach Mucosa	stomach
21	chr15:73876200-73885800	Weak transcription	Fetal Brain Male	brain
22	chr15:73877600-73886800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr15:73877800-73884800	Strong transcription	Duodenum Smooth Muscle	Duodenum
24	chr15:73877800-73884800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr15:73878200-73884800	Strong transcription	Osteobl	bone
26	chr15:73878400-73884800	Strong transcription	Brain Germinal Matrix	brain
27	chr15:73878600-73885800	Weak transcription	Small Intestine	intestine
28	chr15:73879800-73885600	Weak transcription	Fetal Heart	heart
29	chr15:73880000-73885400	Weak transcription	HUVEC	blood vessel
30	chr15:73880000-73887000	Weak transcription	Aorta	Aorta
31	chr15:73880000-73888600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr15:73880000-73894600	Weak transcription	Fetal Thymus	thymus
33	chr15:73880200-73885600	Weak transcription	K562	blood
34	chr15:73880200-73888000	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr15:73880200-73888400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr15:73880200-73888400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr15:73880200-73894000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr15:73881000-73892000	Weak transcription	Hela-S3	cervix
39	chr15:73881200-73885600	Weak transcription	Pancreatic Islets	Pancreatic Islet
40	chr15:73881200-73893800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr15:73881400-73894000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr15:73881400-73894400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr15:73881600-73885800	Weak transcription	Psoas Muscle	Psoas
44	chr15:73881600-73887200	Weak transcription	Brain Hippocampus Middle	brain
45	chr15:73881600-73888400	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr15:73881600-73890400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr15:73881800-73891000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr15:73882000-73885800	Weak transcription	Brain Substantia Nigra	brain
49	chr15:73882000-73885800	Weak transcription	Pancreas	Pancrea
50	chr15:73882000-73893800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links