Variant report

Variant	rs12902884
Chromosome Location	chr15:33440881-33440882
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12901507	0.82[EUR][1000 genomes]
rs12902782	1.00[AFR][1000 genomes]
rs12903814	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12907653	1.00[AFR][1000 genomes]
rs12909898	1.00[AFR][1000 genomes]
rs12911519	1.00[AFR][1000 genomes]
rs12914708	1.00[AFR][1000 genomes]
rs12915870	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs16965470	0.83[EUR][1000 genomes]
rs17816892	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17816898	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17816904	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34053978	1.00[AFR][1000 genomes]
rs34171151	1.00[AFR][1000 genomes]
rs34292665	1.00[AFR][1000 genomes]
rs34633722	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34718785	1.00[AFR][1000 genomes]
rs34945107	1.00[AFR][1000 genomes]
rs35060601	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35158642	1.00[AFR][1000 genomes]
rs35187364	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35414549	1.00[AFR][1000 genomes]
rs35493298	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35695671	0.84[EUR][1000 genomes]
rs35836585	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35877923	1.00[AFR][1000 genomes]
rs35991626	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs36010988	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs36014025	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs71462838	1.00[AFR][1000 genomes]
rs71462844	1.00[AFR][1000 genomes]
rs71462846	1.00[AFR][1000 genomes]
rs71462848	1.00[AFR][1000 genomes]
rs71462849	1.00[AFR][1000 genomes]
rs71462852	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71462853	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7171510	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7173052	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv903979	chr15:33144202-33550256	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1052966	chr15:33149753-33541951	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv542340	chr15:33149753-33541951	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv903981	chr15:33207082-33550256	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv568918	chr15:33244672-33446971	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv903982	chr15:33282844-33616150	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv903983	chr15:33388030-33550256	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33427800-33445400	Weak transcription	Right Atrium	heart
2	chr15:33435800-33442200	Weak transcription	Duodenum Mucosa	Duodenum
3	chr15:33438000-33442000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr15:33438400-33444800	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr15:33438600-33441600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr15:33438600-33449800	Weak transcription	NHEK	skin
7	chr15:33438800-33442000	Weak transcription	HMEC	breast
8	chr15:33438800-33442400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr15:33438800-33442800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr15:33438800-33444600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr15:33439000-33445200	Weak transcription	Placenta	Placenta
12	chr15:33439000-33445200	Weak transcription	Lung	lung
13	chr15:33439000-33447200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr15:33439400-33441600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr15:33439400-33441800	Weak transcription	Fetal Intestine Large	intestine
16	chr15:33440200-33441000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:33440200-33441200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr15:33440200-33442200	Active TSS	Fetal Kidney	kidney
19	chr15:33440400-33441000	Flanking Active TSS	Primary T cells from cord blood	blood
20	chr15:33440400-33441000	Enhancers	Primary T cells fromperipheralblood	blood
21	chr15:33440400-33441000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr15:33440400-33441000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
23	chr15:33440400-33441000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
24	chr15:33440400-33441000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr15:33440400-33441000	Enhancers	Brain Angular Gyrus	brain
26	chr15:33440400-33441000	Enhancers	Fetal Intestine Small	intestine
27	chr15:33440400-33441200	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr15:33440400-33441200	Enhancers	Primary hematopoietic stem cells	blood
29	chr15:33440400-33441200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
30	chr15:33440400-33442200	Enhancers	Monocytes-CD14+_RO01746	blood
31	chr15:33440600-33441000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr15:33440600-33441000	Enhancers	Primary B cells from peripheral blood	blood
33	chr15:33440600-33441000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
34	chr15:33440600-33441000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
35	chr15:33440600-33441000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
36	chr15:33440600-33441000	Flanking Active TSS	Fetal Thymus	thymus
37	chr15:33440600-33441000	Enhancers	Dnd41	blood
38	chr15:33440800-33441000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
39	chr15:33440800-33441000	Active TSS	Primary T helper naive cells fromperipheralblood	blood
40	chr15:33440800-33441000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr15:33440800-33441200	Enhancers	Primary hematopoietic stem cells short term culture	blood
42	chr15:33440800-33441200	Enhancers	Primary T helper naive cells from peripheral blood	blood
43	chr15:33440800-33441200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
44	chr15:33440800-33441200	Enhancers	Primary T killer memory cells from peripheral blood	blood
45	chr15:33440800-33441200	Enhancers	Sigmoid Colon	Sigmoid Colon
46	chr15:33440800-33442600	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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