Variant report

Variant	rs2590508
Chromosome Location	chr13:94152578-94152579
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:94151315..94153018-chr13:94160965..94162525,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DCT-15	chr13:94151520-94153117	NONHSAT034712

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1318869	1.00[AMR][1000 genomes]
rs1445246	1.00[AMR][1000 genomes]
rs1445247	1.00[AMR][1000 genomes]
rs16948911	1.00[AMR][1000 genomes]
rs16948925	1.00[AMR][1000 genomes]
rs16948958	1.00[AMR][1000 genomes]
rs2590513	1.00[AMR][1000 genomes]
rs2590516	1.00[AMR][1000 genomes]
rs2590519	1.00[AMR][1000 genomes]
rs2590521	1.00[AMR][1000 genomes]
rs2590522	1.00[AMR][1000 genomes]
rs2590524	1.00[AMR][1000 genomes]
rs2590525	1.00[AMR][1000 genomes]
rs2590526	1.00[AMR][1000 genomes]
rs2590528	1.00[AMR][1000 genomes]
rs2590529	1.00[AMR][1000 genomes]
rs2590530	1.00[AMR][1000 genomes]
rs2590532	1.00[AMR][1000 genomes]
rs2590533	1.00[AMR][1000 genomes]
rs2590534	1.00[AMR][1000 genomes]
rs2590537	1.00[AMR][1000 genomes]
rs2590538	1.00[AMR][1000 genomes]
rs2590539	1.00[AMR][1000 genomes]
rs2590540	1.00[AMR][1000 genomes]
rs2590541	1.00[AMR][1000 genomes]
rs2590542	1.00[AMR][1000 genomes]
rs2813589	1.00[AMR][1000 genomes]
rs2813599	1.00[AMR][1000 genomes]
rs2813601	1.00[AMR][1000 genomes]
rs2813602	1.00[AMR][1000 genomes]
rs2813603	1.00[AMR][1000 genomes]
rs2813604	1.00[AMR][1000 genomes]
rs2813605	1.00[AMR][1000 genomes]
rs2813607	1.00[AMR][1000 genomes]
rs3908638	1.00[AMR][1000 genomes]
rs6492666	1.00[AMR][1000 genomes]
rs7320003	1.00[AMR][1000 genomes]
rs7322180	1.00[AMR][1000 genomes]
rs7322574	1.00[AMR][1000 genomes]
rs7326344	1.00[AMR][1000 genomes]
rs7328826	1.00[AMR][1000 genomes]
rs7329040	1.00[AMR][1000 genomes]
rs7329041	1.00[AMR][1000 genomes]
rs7333593	1.00[AMR][1000 genomes]
rs74108582	1.00[AMR][1000 genomes]
rs74108584	1.00[AMR][1000 genomes]
rs74108585	1.00[AMR][1000 genomes]
rs7981908	1.00[AMR][1000 genomes]
rs7982284	1.00[AMR][1000 genomes]
rs7993697	1.00[AMR][1000 genomes]
rs975827	1.00[AMR][1000 genomes]
rs976419	1.00[AMR][1000 genomes]
rs976420	1.00[AMR][1000 genomes]
rs976421	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869070	chr13:93347616-94286933	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1053035	chr13:93842576-94229732	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv541880	chr13:93842576-94229732	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv530636	chr13:93997311-94281707	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv916039	chr13:94035909-94191105	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv562749	chr13:94083352-94263206	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	esv1842896	chr13:94095160-94153194	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv948714	chr13:94100104-94699435	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv900921	chr13:94105666-94157481	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv900922	chr13:94105666-94281492	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94149800-94154400	Weak transcription	Fetal Brain Female	brain
2	chr13:94150000-94157800	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr13:94151600-94152600	Enhancers	Fetal Lung	lung
4	chr13:94151600-94153200	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr13:94152000-94152600	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr13:94152000-94152600	Active TSS	Brain Angular Gyrus	brain
7	chr13:94152000-94153000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr13:94152000-94153000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr13:94152200-94152600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr13:94152200-94152600	Enhancers	Brain Germinal Matrix	brain
11	chr13:94152200-94152600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr13:94152200-94153200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr13:94152200-94153200	Enhancers	Fetal Heart	heart
14	chr13:94152200-94154000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr13:94152200-94160600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr13:94152400-94152600	Enhancers	Brain Hippocampus Middle	brain
17	chr13:94152400-94152600	Active TSS	Ovary	ovary
18	chr13:94152400-94153000	Enhancers	Fetal Brain Male	brain
19	chr13:94152400-94157000	Weak transcription	Fetal Kidney	kidney
20	chr13:94152400-94157200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr13:94152400-94157200	Weak transcription	Colon Smooth Muscle	Colon

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