Variant report

Variant	rs8029425
Chromosome Location	chr15:44289980-44289981
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10459588	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11635948	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12900880	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12910886	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1426658	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs16952932	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16958670	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs16958691	1.00[JPT][hapmap];0.81[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1820482	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2252959	0.95[ASN][1000 genomes]
rs2615279	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2696085	0.95[ASN][1000 genomes]
rs2696086	0.95[ASN][1000 genomes]
rs2696088	0.95[ASN][1000 genomes]
rs2696091	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2696097	0.82[ASN][1000 genomes]
rs2733239	0.82[ASN][1000 genomes]
rs28375626	0.85[AMR][1000 genomes]
rs28479591	0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs28623028	0.85[AMR][1000 genomes]
rs28656778	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs28832708	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2929282	1.00[JPT][hapmap]
rs2950619	0.95[ASN][1000 genomes]
rs2950620	0.95[ASN][1000 genomes]
rs2950622	0.82[ASN][1000 genomes]
rs2952447	0.95[ASN][1000 genomes]
rs4924728	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs57575746	0.92[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs58008065	0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs58278421	1.00[AMR][1000 genomes]
rs58541819	1.00[AMR][1000 genomes]
rs58882193	0.95[ASN][1000 genomes]
rs60536495	0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs61271143	1.00[AMR][1000 genomes]
rs6493094	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6493096	1.00[JPT][hapmap];0.80[YRI][hapmap];0.95[ASN][1000 genomes]
rs6493098	0.95[ASN][1000 genomes]
rs7162529	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7168522	0.85[AMR][1000 genomes]
rs7179696	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8029187	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs8030125	1.00[AMR][1000 genomes]
rs8035382	1.00[JPT][hapmap]
rs8035402	1.00[JPT][hapmap]
rs8041328	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037786	chr15:43888926-44318587	Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv542370	chr15:43888926-44318587	Weak transcription Genic enhancers Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
3	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
4	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
5	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
6	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
7	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
8	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

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44263000-44295600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr15:44267400-44290600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr15:44268800-44290400	Weak transcription	Fetal Heart	heart
4	chr15:44269800-44291800	Weak transcription	NH-A	brain
5	chr15:44269800-44292200	Weak transcription	HMEC	breast
6	chr15:44276800-44290800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:44277400-44292400	Weak transcription	NHLF	lung
8	chr15:44278200-44295400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr15:44279800-44290600	Weak transcription	NHEK	skin
10	chr15:44280400-44292400	Weak transcription	Right Ventricle	heart
11	chr15:44282000-44296800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr15:44282400-44292200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:44282600-44290800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr15:44287600-44290400	Weak transcription	HUVEC	blood vessel
15	chr15:44288400-44291200	Enhancers	Brain Hippocampus Middle	brain
16	chr15:44288400-44295400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr15:44288600-44301600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr15:44288800-44290600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr15:44289800-44290200	Weak transcription	Brain Substantia Nigra	brain
20	chr15:44289800-44290600	Weak transcription	Brain Angular Gyrus	brain
21	chr15:44289800-44290600	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr15:44289800-44291800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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