Variant report

Variant	rs8036376
Chromosome Location	chr15:39868627-39868628
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:39867115..39869175-chr15:39869428..39872036,2	MCF-7	breast:
2	chr15:39864644..39866716-chr15:39867291..39870082,2	MCF-7	breast:
3	chr15:39866146..39869357-chr15:39871552..39876113,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137801	Chromatin interaction

Extended variants
information (count: 101 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs1004739	0.88[CEU][hapmap]
rs1004740	0.88[CEU][hapmap]
rs10152640	0.90[CHB][hapmap];0.83[CHD][hapmap];0.82[ASN][1000 genomes]
rs10520137	0.88[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.80[GIH][hapmap];0.80[JPT][hapmap];0.91[TSI][hapmap];0.89[ASN][1000 genomes]
rs10520138	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs11070220	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11070221	0.88[ASN][1000 genomes]
rs11070222	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.80[GIH][hapmap];0.85[JPT][hapmap];0.91[TSI][hapmap];0.88[ASN][1000 genomes]
rs11070223	0.88[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs11070224	0.88[ASN][1000 genomes]
rs11070225	0.88[CEU][hapmap];0.95[CHB][hapmap];0.89[ASN][1000 genomes]
rs1134485	0.88[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.85[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1134486	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11630406	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs11631570	0.88[CEU][hapmap]
rs11632879	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs11633974	0.88[CEU][hapmap]
rs11635103	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs11638041	0.88[CEU][hapmap]
rs11638500	0.88[CEU][hapmap]
rs11852591	0.88[CEU][hapmap];0.80[CHB][hapmap]
rs11852649	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs11854797	0.88[CEU][hapmap]
rs11856294	0.88[CEU][hapmap]
rs11856971	0.86[CEU][hapmap];0.80[CHB][hapmap]
rs11857819	0.87[CEU][hapmap];0.89[CHB][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs11857927	0.88[CEU][hapmap]
rs12443011	0.90[CHB][hapmap];0.83[CHD][hapmap];0.82[ASN][1000 genomes]
rs12908846	1.00[ASW][hapmap];0.88[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.80[GIH][hapmap];0.80[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12910572	0.87[ASN][1000 genomes]
rs12912082	0.88[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1478604	0.90[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1478605	0.90[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs16969386	1.00[ASW][hapmap];0.88[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.80[GIH][hapmap];0.80[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs16969395	0.85[ASN][1000 genomes]
rs16969410	0.88[CEU][hapmap];0.90[CHB][hapmap];0.80[JPT][hapmap];0.88[ASN][1000 genomes]
rs16969445	0.86[CEU][hapmap]
rs16969459	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs16969460	0.88[CEU][hapmap]
rs16969475	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs16969478	1.00[CEU][hapmap];0.81[CHB][hapmap];0.81[TSI][hapmap]
rs1876853	0.88[CEU][hapmap];0.81[CHB][hapmap];0.81[TSI][hapmap]
rs1904209	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2169830	0.90[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs2228261	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2229364	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2292305	0.88[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2411313	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs2412409	0.88[CEU][hapmap]
rs2412413	0.88[CEU][hapmap];0.81[CHB][hapmap];0.81[TSI][hapmap]
rs2412415	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs2412417	0.88[CEU][hapmap];0.80[CHB][hapmap]
rs2412419	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.80[GIH][hapmap];0.85[JPT][hapmap];0.91[TSI][hapmap];0.86[ASN][1000 genomes]
rs2412420	0.88[ASN][1000 genomes]
rs2412421	0.82[ASN][1000 genomes]
rs2618162	0.86[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs2618163	0.84[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs2664139	0.91[ASN][1000 genomes]
rs2664141	0.86[ASN][1000 genomes]
rs2898686	0.88[CEU][hapmap];0.80[CHB][hapmap]
rs2898687	0.88[CEU][hapmap];0.81[CHB][hapmap];0.81[TSI][hapmap]
rs2898688	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs3743125	0.90[CHB][hapmap];0.92[CHD][hapmap];0.83[GIH][hapmap];0.85[JPT][hapmap];0.97[MKK][hapmap];0.87[TSI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3784390	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[YRI][hapmap]
rs4349120	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs4476147	0.88[CEU][hapmap]
rs4547308	0.88[CEU][hapmap];0.80[CHB][hapmap]
rs4583211	0.86[CEU][hapmap]
rs56938133	0.88[ASN][1000 genomes]
rs67239630	0.88[ASN][1000 genomes]
rs7162070	0.88[CEU][hapmap];0.81[CHB][hapmap];0.81[TSI][hapmap]
rs7162781	0.88[CEU][hapmap];0.81[CHB][hapmap];0.81[TSI][hapmap]
rs7167184	0.85[CEU][hapmap]
rs7167366	0.87[ASN][1000 genomes]
rs7168755	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs7169478	0.88[CEU][hapmap];0.80[GIH][hapmap];0.91[TSI][hapmap];0.86[AMR][1000 genomes]
rs7169574	0.88[CEU][hapmap];0.85[CHB][hapmap];0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7170335	0.80[CHB][hapmap]
rs7170682	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7177324	0.89[ASN][1000 genomes]
rs7179293	0.90[CHB][hapmap];0.88[CHD][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs7183544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs753598	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs753599	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8029602	0.88[CEU][hapmap];0.81[CHB][hapmap];0.81[TSI][hapmap]
rs8032035	0.88[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs8034594	0.85[CHB][hapmap];0.81[ASN][1000 genomes]
rs8036633	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][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]
rs8039035	0.94[CHB][hapmap];0.82[JPT][hapmap];0.83[ASN][1000 genomes]
rs884584	0.88[CEU][hapmap];0.81[TSI][hapmap]
rs9302102	0.81[ASN][1000 genomes]
rs949646	0.90[CHB][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs964424	0.92[ASN][1000 genomes]
rs970280	0.84[ASN][1000 genomes]
rs9806647	0.89[ASN][1000 genomes]
rs999393	0.80[CHB][hapmap]

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	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv832977	chr15:39817512-39981520	Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs8036376	THBS1	cis	parietal	SCAN
rs8036376	FSIP1	cis	parietal	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39851000-39871800	Weak transcription	Pancreas	Pancrea
2	chr15:39854400-39870800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:39857800-39870600	Weak transcription	HSMMtube	muscle
4	chr15:39863600-39871200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:39865800-39871200	Weak transcription	Esophagus	oesophagus
6	chr15:39866000-39871000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr15:39866000-39871200	Weak transcription	Adipose Nuclei	Adipose
8	chr15:39866200-39870000	Weak transcription	Fetal Lung	lung
9	chr15:39866400-39870400	Weak transcription	HUVEC	blood vessel
10	chr15:39866400-39870600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr15:39866400-39870800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr15:39866400-39870800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr15:39866600-39870400	Weak transcription	Fetal Stomach	stomach
14	chr15:39866600-39870800	Weak transcription	Colon Smooth Muscle	Colon
15	chr15:39866800-39871200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr15:39867000-39870600	Weak transcription	HMEC	breast
17	chr15:39867000-39870600	Weak transcription	NHDF-Ad	bronchial
18	chr15:39867000-39870600	Weak transcription	Osteobl	bone
19	chr15:39867400-39869600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr15:39867400-39870800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr15:39867600-39871000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links