Variant report

Variant	rs3825862
Chromosome Location	chr15:33064148-33064149
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:17)

rs_ID	r²[population]
rs12050761	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12148620	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1979167	0.80[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1979168	1.00[CHB][hapmap];0.87[JPT][hapmap];0.96[ASN][1000 genomes]
rs1979169	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1979170	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28379322	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28403314	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28414020	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28425489	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28696324	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28728267	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28756786	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3743106	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3812931	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3930082	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4779589	0.82[AMR][1000 genomes];0.86[EUR][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	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	nsv482680	chr15:32958401-33154005	Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv832961	chr15:33021177-33134988	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv903977	chr15:33040782-33117302	Strong transcription Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	esv2763090	chr15:33042338-33072151	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33055800-33065200	Weak transcription	HSMMtube	muscle
2	chr15:33058200-33069800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr15:33059400-33064400	Weak transcription	Esophagus	oesophagus
4	chr15:33059400-33066800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr15:33059800-33064800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr15:33059800-33065000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr15:33060600-33097600	Weak transcription	Thymus	Thymus
8	chr15:33061200-33070200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr15:33061200-33141000	Weak transcription	Placenta	Placenta
10	chr15:33061600-33064800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr15:33062200-33064600	Weak transcription	Stomach Smooth Muscle	stomach
12	chr15:33062400-33068600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr15:33062400-33068800	Strong transcription	Sigmoid Colon	Sigmoid Colon
14	chr15:33062600-33064600	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr15:33062600-33069600	Weak transcription	Stomach Mucosa	stomach
16	chr15:33062600-33111200	Weak transcription	Gastric	stomach
17	chr15:33062800-33064400	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr15:33063000-33064600	Weak transcription	Lung	lung
19	chr15:33063000-33069200	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr15:33063200-33064200	Weak transcription	Osteobl	bone
21	chr15:33063200-33065200	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr15:33063200-33065600	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr15:33063200-33082400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr15:33063600-33064200	Strong transcription	HSMM	muscle
25	chr15:33063600-33066400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr15:33063600-33068600	Weak transcription	Brain Hippocampus Middle	brain
27	chr15:33063800-33065000	Strong transcription	NHLF	lung
28	chr15:33063800-33065800	Strong transcription	Colonic Mucosa	Colon
29	chr15:33063800-33094400	Weak transcription	Fetal Stomach	stomach
30	chr15:33064000-33065600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr15:33064000-33065600	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr15:33064000-33067400	Strong transcription	Rectal Mucosa Donor 31	rectum
33	chr15:33064000-33067400	Enhancers	NHDF-Ad	bronchial
34	chr15:33064000-33068400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr15:33064000-33069800	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr15:33064000-33070600	Weak transcription	Primary T helper cells PMA-I stimulated	--

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