Variant report

Variant	rs58438796
Chromosome Location	chr1:180627305-180627306
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs12069760	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12076809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12076888	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12081201	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12086487	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57893270	0.85[AMR][1000 genomes]
rs58078052	0.85[AMR][1000 genomes]
rs58688129	0.85[AMR][1000 genomes]
rs58826347	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58917243	0.85[AMR][1000 genomes]
rs59071173	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59451280	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59921476	0.85[AMR][1000 genomes]
rs60280211	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60823702	0.85[AMR][1000 genomes]
rs61038985	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61058506	0.85[AMR][1000 genomes]
rs61213326	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425651	0.85[AMR][1000 genomes]
rs6425654	0.85[AMR][1000 genomes]
rs6659262	0.85[AMR][1000 genomes]
rs6675189	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6688066	0.85[AMR][1000 genomes]
rs6688797	0.85[AMR][1000 genomes]
rs6692456	0.85[AMR][1000 genomes]
rs6704318	0.85[AMR][1000 genomes]
rs73034834	0.85[AMR][1000 genomes]
rs73034843	0.85[AMR][1000 genomes]
rs73034849	0.85[AMR][1000 genomes]
rs73034858	0.85[AMR][1000 genomes]
rs73034861	0.85[AMR][1000 genomes]
rs73034880	0.85[AMR][1000 genomes]
rs73034895	0.85[AMR][1000 genomes]
rs73036503	0.85[AMR][1000 genomes]
rs73036511	0.85[AMR][1000 genomes]
rs73036513	0.85[AMR][1000 genomes]
rs73040964	0.85[AMR][1000 genomes]
rs73040979	0.85[AMR][1000 genomes]
rs73042709	0.85[AMR][1000 genomes]
rs73044553	0.85[AMR][1000 genomes]
rs73044557	0.85[AMR][1000 genomes]
rs73044560	0.85[AMR][1000 genomes]
rs73045791	0.85[AMR][1000 genomes]
rs73047677	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047679	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047683	0.85[AMR][1000 genomes]
rs73047689	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047690	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047691	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047693	0.85[AMR][1000 genomes]
rs73047696	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047697	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047699	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047700	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73049462	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73049463	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73049466	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73049468	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73049473	0.85[AMR][1000 genomes]
rs73049477	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73049479	0.85[AMR][1000 genomes]
rs73049494	0.85[AMR][1000 genomes]
rs73049495	0.85[AMR][1000 genomes]
rs73049502	0.85[AMR][1000 genomes]
rs73051223	0.85[AMR][1000 genomes]
rs73051232	0.85[AMR][1000 genomes]
rs73051247	0.85[AMR][1000 genomes]
rs73051258	0.85[AMR][1000 genomes]
rs7513368	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7513630	0.85[AMR][1000 genomes]
rs7523694	0.85[AMR][1000 genomes]
rs7528848	0.85[AMR][1000 genomes]
rs7528955	0.85[AMR][1000 genomes]
rs7536352	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003359	chr1:180300936-180727561	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
2	nsv949311	chr1:180438895-180692815	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
3	nsv872578	chr1:180510771-180842344	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180602000-180645200	Weak transcription	Gastric	stomach
2	chr1:180613200-180632600	Weak transcription	Aorta	Aorta
3	chr1:180619600-180632600	Weak transcription	Pancreas	Pancrea
4	chr1:180619600-180634600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr1:180625800-180634800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:180626200-180627600	ZNF genes & repeats	Brain Anterior Caudate	brain
7	chr1:180626400-180627600	ZNF genes & repeats	Adipose Nuclei	Adipose
8	chr1:180626400-180627800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
9	chr1:180627000-180627600	ZNF genes & repeats	Fetal Heart	heart
10	chr1:180627000-180627800	ZNF genes & repeats	Fetal Lung	lung
11	chr1:180627200-180627600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr1:180627200-180627600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr1:180627200-180627800	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
14	chr1:180627200-180628200	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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