Variant report

Variant	rs28656778
Chromosome Location	chr15:44325480-44325481
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10459588	1.00[ASN][1000 genomes]
rs11635948	0.87[ASN][1000 genomes]
rs12900880	0.88[ASN][1000 genomes]
rs12910886	1.00[ASN][1000 genomes]
rs1426658	0.88[ASN][1000 genomes]
rs16952932	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs16958670	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16958691	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1820482	1.00[ASN][1000 genomes]
rs2252959	1.00[ASN][1000 genomes]
rs2615279	1.00[ASN][1000 genomes]
rs2696085	0.91[ASN][1000 genomes]
rs2696086	0.91[ASN][1000 genomes]
rs2696088	0.91[ASN][1000 genomes]
rs2696091	1.00[ASN][1000 genomes]
rs28375626	0.92[AMR][1000 genomes]
rs28479591	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28623028	0.92[AMR][1000 genomes]
rs28832708	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2950619	1.00[ASN][1000 genomes]
rs2950620	0.91[ASN][1000 genomes]
rs2952447	0.91[ASN][1000 genomes]
rs4924728	0.95[ASN][1000 genomes]
rs57575746	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs58008065	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58278421	0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs58541819	0.92[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs58882193	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60536495	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs61271143	0.92[AMR][1000 genomes]
rs6493094	0.88[ASN][1000 genomes]
rs6493096	1.00[ASN][1000 genomes]
rs6493098	1.00[ASN][1000 genomes]
rs7162529	0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7179696	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs8029187	1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs8029425	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs8030125	0.92[AMR][1000 genomes]
rs8041328	0.83[AFR][1000 genomes];0.92[AMR][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	nsv431387	chr15:43929378-44862930	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	158 gene(s)	inside rSNPs	diseases
2	nsv931051	chr15:43988761-44833518	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	154 gene(s)	inside rSNPs	diseases
3	nsv1044435	chr15:44176103-44507403	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv1052511	chr15:44266441-44719023	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
5	nsv542371	chr15:44266441-44719023	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
6	nsv1045362	chr15:44280481-44414443	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
7	nsv832989	chr15:44306469-44461710	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44321000-44326400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr15:44321200-44327000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr15:44321800-44325800	Weak transcription	Hela-S3	cervix
4	chr15:44322000-44326200	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr15:44322200-44326000	Weak transcription	NH-A	brain
6	chr15:44322200-44326400	Weak transcription	Adipose Nuclei	Adipose
7	chr15:44322600-44326000	Weak transcription	Osteobl	bone
8	chr15:44322600-44327000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:44322600-44327200	Weak transcription	Brain Angular Gyrus	brain
10	chr15:44322800-44326600	Weak transcription	Brain Cingulate Gyrus	brain
11	chr15:44322800-44330800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr15:44323000-44325800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr15:44323000-44326000	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr15:44323000-44326000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr15:44323000-44326000	Weak transcription	Fetal Heart	heart
16	chr15:44323000-44326000	Weak transcription	HSMM	muscle
17	chr15:44323000-44326200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr15:44323000-44326200	Weak transcription	Brain Anterior Caudate	brain
19	chr15:44323000-44326200	Weak transcription	HMEC	breast
20	chr15:44323000-44326200	Weak transcription	HSMMtube	muscle
21	chr15:44323000-44326200	Weak transcription	NHEK	skin
22	chr15:44323000-44326400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr15:44323000-44326400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr15:44323000-44326400	Weak transcription	Brain Hippocampus Middle	brain
25	chr15:44323000-44326600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr15:44323000-44326600	Weak transcription	Brain Substantia Nigra	brain
27	chr15:44323000-44326600	Weak transcription	NHLF	lung
28	chr15:44323000-44326800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr15:44323000-44326800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr15:44323000-44327000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr15:44323000-44327200	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr15:44323000-44328400	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr15:44323000-44330600	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr15:44323200-44326000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr15:44323200-44326000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr15:44323400-44325800	Weak transcription	HUVEC	blood vessel
37	chr15:44323400-44326000	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links