Variant report

Variant	rs58319120
Chromosome Location	chr15:39867313-39867314
allele	C/T
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: 65 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1551946	1.00[ASN][1000 genomes]
rs16969232	1.00[ASN][1000 genomes]
rs16969234	1.00[ASN][1000 genomes]
rs16969236	1.00[ASN][1000 genomes]
rs16969237	1.00[ASN][1000 genomes]
rs16969251	1.00[ASN][1000 genomes]
rs16969254	1.00[ASN][1000 genomes]
rs1876850	1.00[ASN][1000 genomes]
rs1876851	1.00[ASN][1000 genomes]
rs1961097	1.00[ASN][1000 genomes]
rs28390974	1.00[ASN][1000 genomes]
rs28433877	1.00[ASN][1000 genomes]
rs28605448	1.00[ASN][1000 genomes]
rs41519250	1.00[ASN][1000 genomes]
rs57247690	1.00[ASN][1000 genomes]
rs57383264	1.00[ASN][1000 genomes]
rs58042874	1.00[ASN][1000 genomes]
rs58677957	1.00[ASN][1000 genomes]
rs58789628	1.00[ASN][1000 genomes]
rs58886304	1.00[ASN][1000 genomes]
rs59648752	1.00[ASN][1000 genomes]
rs61201811	1.00[ASN][1000 genomes]
rs6492901	1.00[ASN][1000 genomes]
rs6492903	1.00[ASN][1000 genomes]
rs6492904	1.00[ASN][1000 genomes]
rs7162555	1.00[ASN][1000 genomes]
rs7163169	1.00[ASN][1000 genomes]
rs7166970	1.00[ASN][1000 genomes]
rs7167206	1.00[ASN][1000 genomes]
rs7168679	1.00[ASN][1000 genomes]
rs7168836	1.00[ASN][1000 genomes]
rs7175706	1.00[ASN][1000 genomes]
rs7183198	1.00[ASN][1000 genomes]
rs73385184	1.00[ASN][1000 genomes]
rs73385188	1.00[ASN][1000 genomes]
rs73385190	1.00[ASN][1000 genomes]
rs73387008	1.00[ASN][1000 genomes]
rs73387053	1.00[ASN][1000 genomes]
rs73387054	1.00[ASN][1000 genomes]
rs73387057	1.00[ASN][1000 genomes]
rs73387060	1.00[ASN][1000 genomes]
rs73387062	1.00[ASN][1000 genomes]
rs73387065	1.00[ASN][1000 genomes]
rs73387069	1.00[ASN][1000 genomes]
rs73389089	1.00[ASN][1000 genomes]
rs73389092	1.00[ASN][1000 genomes]
rs73389096	1.00[ASN][1000 genomes]
rs73391204	1.00[ASN][1000 genomes]
rs73391206	1.00[ASN][1000 genomes]
rs73391226	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73391234	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs8024038	1.00[ASN][1000 genomes]
rs8024502	1.00[ASN][1000 genomes]
rs8024606	1.00[ASN][1000 genomes]
rs8024670	1.00[ASN][1000 genomes]
rs8024886	1.00[ASN][1000 genomes]
rs8038776	1.00[ASN][1000 genomes]
rs8039379	1.00[ASN][1000 genomes]
rs8041420	1.00[ASN][1000 genomes]
rs937955	1.00[ASN][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	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

No data

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	chr15:39865400-39867400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr15:39865600-39867400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr15:39865800-39871200	Weak transcription	Esophagus	oesophagus
8	chr15:39866000-39871000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr15:39866000-39871200	Weak transcription	Adipose Nuclei	Adipose
10	chr15:39866200-39870000	Weak transcription	Fetal Lung	lung
11	chr15:39866400-39870400	Weak transcription	HUVEC	blood vessel
12	chr15:39866400-39870600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:39866400-39870800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr15:39866400-39870800	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr15:39866600-39867600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr15:39866600-39870400	Weak transcription	Fetal Stomach	stomach
17	chr15:39866600-39870800	Weak transcription	Colon Smooth Muscle	Colon
18	chr15:39866800-39871200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr15:39867000-39870600	Weak transcription	HMEC	breast
20	chr15:39867000-39870600	Weak transcription	NHDF-Ad	bronchial
21	chr15:39867000-39870600	Weak transcription	Osteobl	bone

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