Variant report

Variant	rs280034
Chromosome Location	chr15:77023038-77023039
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:77022336..77024619-chr15:77130860..77133173,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1499019	0.95[YRI][hapmap];0.80[AFR][1000 genomes]
rs1499020	0.95[YRI][hapmap];0.80[AFR][1000 genomes]
rs157770	0.95[YRI][hapmap]
rs157771	0.95[YRI][hapmap]
rs157772	0.85[YRI][hapmap]
rs157773	0.95[YRI][hapmap]
rs157793	0.84[YRI][hapmap]
rs1867196	0.94[YRI][hapmap];0.81[AFR][1000 genomes]
rs2120112	0.90[YRI][hapmap];0.81[AFR][1000 genomes]
rs2404735	0.94[YRI][hapmap];0.80[AFR][1000 genomes]
rs2439983	0.82[AFR][1000 genomes]
rs2454452	0.89[YRI][hapmap]
rs2468117	0.85[YRI][hapmap]
rs2585728	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs279991	0.87[AFR][1000 genomes]
rs279994	0.87[AFR][1000 genomes]
rs280017	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs280019	0.95[YRI][hapmap];0.87[AFR][1000 genomes]
rs280021	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs280022	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs280027	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs280031	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs280035	0.98[AFR][1000 genomes]
rs2930684	0.89[AFR][1000 genomes]
rs3099135	0.89[AFR][1000 genomes]
rs3099141	0.87[AFR][1000 genomes]
rs3099145	0.92[AFR][1000 genomes]
rs3102707	0.88[YRI][hapmap]
rs3102711	0.94[YRI][hapmap];0.94[AFR][1000 genomes]
rs3106379	0.82[AFR][1000 genomes]
rs3110377	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs3110386	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs560598	0.94[YRI][hapmap]
rs8038253	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv542439	chr15:76762161-77196336	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
2	esv3440794	chr15:76764595-77571114	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv904400	chr15:76772062-77085283	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1053924	chr15:76803849-77089079	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
5	nsv904401	chr15:76816015-77085283	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
6	esv2830013	chr15:76863023-77176158	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1039269	chr15:76863437-77057021	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
8	nsv904404	chr15:76869929-77033934	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
9	nsv904405	chr15:76869929-77047915	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
10	nsv904406	chr15:76869929-77085283	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
11	nsv904407	chr15:76869929-77121196	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
12	nsv904408	chr15:76884127-77085283	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv1043066	chr15:76892097-77057021	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv542441	chr15:76892097-77057021	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	nsv1046137	chr15:76892097-77196336	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
16	nsv542442	chr15:76892097-77196336	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
17	nsv904409	chr15:76893186-77033934	Strong transcription ZNF genes & repeats Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
18	nsv904410	chr15:76893186-77047915	ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
19	nsv904411	chr15:76893186-77085283	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
20	nsv904412	chr15:76910031-77085283	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
21	nsv457206	chr15:76971456-77121196	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
22	nsv570110	chr15:76971456-77121196	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
23	esv3367577	chr15:77015618-77442634	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76989600-77055800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr15:76990200-77025200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr15:76992400-77056200	Weak transcription	Colon Smooth Muscle	Colon
4	chr15:76992400-77056200	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr15:76992800-77056000	Weak transcription	Right Ventricle	heart
6	chr15:76993000-77024800	Weak transcription	Gastric	stomach
7	chr15:76993000-77024800	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr15:76993000-77024800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr15:76993000-77025000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr15:76993000-77025000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr15:76993200-77056200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr15:76994200-77056000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr15:76996000-77025000	Weak transcription	Left Ventricle	heart
14	chr15:77007000-77025000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr15:77007600-77029800	Weak transcription	Brain Angular Gyrus	brain
16	chr15:77008200-77025200	Weak transcription	Primary B cells from peripheral blood	blood
17	chr15:77008600-77024800	Weak transcription	Pancreas	Pancrea
18	chr15:77008600-77025200	Weak transcription	Esophagus	oesophagus
19	chr15:77008600-77030000	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr15:77008800-77037400	Weak transcription	Fetal Brain Male	brain
21	chr15:77011800-77023400	Weak transcription	HUVEC	blood vessel
22	chr15:77012800-77056200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr15:77015000-77024800	Weak transcription	Lung	lung
24	chr15:77016000-77024800	Weak transcription	Spleen	Spleen
25	chr15:77016400-77024800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr15:77016400-77025000	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr15:77016600-77056000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr15:77016800-77025000	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr15:77017200-77027200	Strong transcription	Primary T helper cells fromperipheralblood	blood
30	chr15:77017400-77024400	Weak transcription	Fetal Intestine Small	intestine
31	chr15:77017600-77054400	Weak transcription	HSMMtube	muscle
32	chr15:77017800-77027800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr15:77018000-77024000	Weak transcription	Brain Germinal Matrix	brain
34	chr15:77018200-77024400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr15:77018200-77025000	Weak transcription	Duodenum Mucosa	Duodenum
36	chr15:77018200-77051600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr15:77019000-77025800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr15:77019000-77025800	Strong transcription	Placenta	Placenta
39	chr15:77019200-77024000	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr15:77019200-77024400	Weak transcription	Ovary	ovary
41	chr15:77019200-77024800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr15:77019200-77025000	Weak transcription	Primary B cells from cord blood	blood
43	chr15:77019200-77025000	Weak transcription	Brain Cingulate Gyrus	brain
44	chr15:77019200-77025000	Weak transcription	Fetal Brain Female	brain
45	chr15:77019200-77025200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr15:77019200-77029600	Weak transcription	Fetal Kidney	kidney
47	chr15:77019200-77033800	Weak transcription	Fetal Heart	heart
48	chr15:77019400-77024400	Weak transcription	Fetal Muscle Trunk	muscle
49	chr15:77019400-77028400	Weak transcription	HepG2	liver
50	chr15:77019400-77032800	Weak transcription	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links