Variant report

Variant	rs28580622
Chromosome Location	chr15:33118490-33118491
allele	A/G
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:18)

rs_ID	r²[population]
rs16959182	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs16959198	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16959223	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16959250	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16959442	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1975678	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56064734	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58349661	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58476108	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58586003	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59044286	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59119474	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs725807	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs74011842	0.80[AMR][1000 genomes]
rs74011843	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8039697	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs921510	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs921512	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	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

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33061200-33141000	Weak transcription	Placenta	Placenta
2	chr15:33096200-33154000	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr15:33096400-33159000	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr15:33103800-33139200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr15:33111200-33130000	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr15:33112000-33126800	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr15:33112000-33130600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr15:33115800-33118600	Enhancers	HSMM	muscle
9	chr15:33116000-33118600	Flanking Active TSS	A549	lung
10	chr15:33116000-33119200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr15:33116000-33119200	Enhancers	NHLF	lung
12	chr15:33116400-33118800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr15:33116400-33119200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr15:33116600-33118800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr15:33117000-33119400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr15:33117000-33125600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr15:33117000-33126800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:33117400-33120800	Weak transcription	Hela-S3	cervix
19	chr15:33117400-33121000	Enhancers	NHDF-Ad	bronchial
20	chr15:33117600-33118800	Enhancers	NH-A	brain
21	chr15:33117600-33118800	Enhancers	Osteobl	bone
22	chr15:33117800-33121000	Enhancers	Muscle Satellite Cultured Cells	--
23	chr15:33117800-33125600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr15:33117800-33130800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr15:33117800-33131000	Weak transcription	Stomach Smooth Muscle	stomach
26	chr15:33118000-33121000	Weak transcription	HSMMtube	muscle
27	chr15:33118000-33124800	Weak transcription	HUVEC	blood vessel
28	chr15:33118200-33118600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:33118400-33118600	Enhancers	Gastric	stomach
30	chr15:33118400-33119600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr15:33118400-33120400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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