Variant report

Variant	rs2028590
Chromosome Location	chr15:45939275-45939276
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:45934455..45936874-chr15:45938212..45940753,2	MCF-7	breast:
2	chr15:45927181..45929961-chr15:45939240..45941307,2	MCF-7	breast:
3	chr15:45931592..45934146-chr15:45938709..45942844,4	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs2083728	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs636910	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs674953	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8023730	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8023759	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];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	nsv904188	chr15:45801035-45941689	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv904189	chr15:45821158-46298458	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv904190	chr15:45892672-45960897	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	27 gene(s)	inside rSNPs	n/a
4	nsv904191	chr15:45902779-46381874	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
5	nsv526945	chr15:45935755-45941689	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45930400-45940800	Weak transcription	Fetal Thymus	thymus
2	chr15:45930600-45940800	Weak transcription	Thymus	Thymus
3	chr15:45933800-45951200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr15:45934200-45961600	Weak transcription	Fetal Kidney	kidney
5	chr15:45934800-45945800	Weak transcription	Primary hematopoietic stem cells	blood
6	chr15:45936600-45939600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr15:45936600-45942800	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr15:45936800-45939400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr15:45937200-45939600	Weak transcription	Lung	lung
10	chr15:45937200-45945600	Weak transcription	Primary B cells from peripheral blood	blood
11	chr15:45937400-45940800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr15:45937800-45940800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr15:45938000-45940800	Weak transcription	Primary T cells from cord blood	blood
14	chr15:45938000-45940800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr15:45938000-45940800	Weak transcription	Hela-S3	cervix
16	chr15:45938200-45940000	Weak transcription	Liver	Liver
17	chr15:45938200-45940200	Weak transcription	Duodenum Mucosa	Duodenum
18	chr15:45938400-45940800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr15:45938400-45950400	Weak transcription	Brain Hippocampus Middle	brain
20	chr15:45938600-45939400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr15:45938600-45939400	Enhancers	Osteobl	bone
22	chr15:45938600-45939600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr15:45938600-45939600	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr15:45938600-45939800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr15:45938600-45939800	Weak transcription	Right Ventricle	heart
26	chr15:45938600-45940000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr15:45938600-45940000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr15:45938600-45940400	Weak transcription	Pancreas	Pancrea
29	chr15:45938600-45940600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr15:45938600-45940600	Weak transcription	HepG2	liver
31	chr15:45938600-45940800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr15:45938600-45940800	Weak transcription	Esophagus	oesophagus
33	chr15:45938600-45940800	Weak transcription	Left Ventricle	heart
34	chr15:45938600-45940800	Weak transcription	Psoas Muscle	Psoas
35	chr15:45938600-45940800	Weak transcription	Right Atrium	heart
36	chr15:45938600-45940800	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr15:45938600-45940800	Weak transcription	Spleen	Spleen
38	chr15:45938600-45940800	Weak transcription	NH-A	brain
39	chr15:45938600-45942000	Weak transcription	Gastric	stomach
40	chr15:45938600-45942600	Weak transcription	Fetal Stomach	stomach
41	chr15:45938600-45943000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr15:45938600-45951000	Weak transcription	Primary B cells from cord blood	blood
43	chr15:45938600-45952600	Weak transcription	Adipose Nuclei	Adipose
44	chr15:45938800-45939400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr15:45938800-45939600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr15:45938800-45940000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
47	chr15:45938800-45940200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr15:45938800-45940200	Weak transcription	NHEK	skin
49	chr15:45938800-45940400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr15:45938800-45940600	Weak transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links