Variant report

Variant	rs28576004
Chromosome Location	chr15:33166379-33166380
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12591087	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12595789	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1451891	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1562928	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1562929	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1562930	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1562931	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1562932	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1562933	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17228880	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17228887	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17816477	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35019594	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422296	chr15:32798938-33221215	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv832962	chr15:33111517-33239736	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv903978	chr15:33144202-33308641	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	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
7	nsv1041609	chr15:33148035-33355999	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv542339	chr15:33148035-33355999	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS 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	4 gene(s)	inside rSNPs	diseases
9	nsv903980	chr15:33149087-33264201	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	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
11	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33138800-33190600	Weak transcription	Thymus	Thymus
2	chr15:33139600-33190600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr15:33142600-33168200	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr15:33147000-33191400	Weak transcription	Lung	lung
5	chr15:33149000-33202000	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr15:33149600-33169600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr15:33153800-33173200	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr15:33154400-33173800	Weak transcription	Placenta	Placenta
9	chr15:33154400-33192800	Weak transcription	Colonic Mucosa	Colon
10	chr15:33154400-33216800	Weak transcription	Fetal Thymus	thymus
11	chr15:33155000-33208200	Weak transcription	Fetal Kidney	kidney
12	chr15:33159400-33166600	Weak transcription	Stomach Mucosa	stomach
13	chr15:33159800-33169400	Weak transcription	HUVEC	blood vessel
14	chr15:33160000-33201800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr15:33160400-33166600	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr15:33162000-33168200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr15:33162000-33178400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr15:33162200-33176400	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr15:33162200-33202400	Weak transcription	Gastric	stomach
20	chr15:33162400-33166800	Enhancers	Muscle Satellite Cultured Cells	--
21	chr15:33163400-33169600	Weak transcription	NH-A	brain
22	chr15:33163400-33174400	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr15:33163800-33167400	Enhancers	Fetal Stomach	stomach
24	chr15:33164000-33168600	Enhancers	Pancreatic Islets	Pancreatic Islet
25	chr15:33164400-33167400	Enhancers	Colon Smooth Muscle	Colon
26	chr15:33165000-33171600	Weak transcription	Aorta	Aorta
27	chr15:33165400-33170600	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr15:33165600-33169000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr15:33165600-33178600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr15:33165800-33170200	Weak transcription	Rectal Smooth Muscle	rectum
31	chr15:33165800-33171600	Weak transcription	Adipose Nuclei	Adipose
32	chr15:33166000-33166600	Enhancers	A549	lung
33	chr15:33166000-33167200	Enhancers	Stomach Smooth Muscle	stomach
34	chr15:33166000-33169800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr15:33166000-33170000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:33166000-33170200	Weak transcription	NHLF	lung
37	chr15:33166000-33170400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr15:33166000-33170400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr15:33166000-33170400	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr15:33166000-33170800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr15:33166000-33175400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr15:33166000-33202400	Weak transcription	Pancreas	Pancrea
43	chr15:33166200-33169600	Weak transcription	NHDF-Ad	bronchial
44	chr15:33166200-33169600	Weak transcription	Osteobl	bone
45	chr15:33166200-33169800	Weak transcription	HSMM	muscle
46	chr15:33166200-33211800	Weak transcription	HSMMtube	muscle

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