Variant report

Variant	rs10502562
Chromosome Location	chr18:28831149-28831150
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DSG1-8	chr18:28830962-28831367	NONHSAT058812
2	lnc-DSG1-8	chr18:28830962-28831251	NONHSAT058811

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10502561	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10502563	1.00[AMR][1000 genomes]
rs10502564	1.00[AFR][1000 genomes]
rs1346166	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1365291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16959853	0.82[AFR][1000 genomes]
rs16961508	1.00[AMR][1000 genomes]
rs16961510	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961517	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs16961522	1.00[AMR][1000 genomes]
rs16961523	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961526	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961528	1.00[AMR][1000 genomes]
rs16961531	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961534	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961539	1.00[AMR][1000 genomes]
rs16961544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16961547	0.82[AFR][1000 genomes]
rs16961551	0.82[AFR][1000 genomes]
rs16961553	0.82[AFR][1000 genomes]
rs16961554	0.82[AFR][1000 genomes]
rs16961556	0.82[AFR][1000 genomes]
rs16961558	0.82[AFR][1000 genomes]
rs35162901	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58788919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59401819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60163794	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60546751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60880428	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61049172	1.00[AMR][1000 genomes]
rs6506902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7241480	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7241623	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7241921	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7242340	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7242348	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8086759	0.82[AFR][1000 genomes]
rs8095737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3360998	chr18:28693111-28881812	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28825200-28835400	Weak transcription	Right Atrium	heart
2	chr18:28827000-28841400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr18:28827600-28831600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr18:28827800-28832400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr18:28827800-28835400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr18:28828000-28835600	Weak transcription	GM12878-XiMat	blood
7	chr18:28828000-28841400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr18:28829000-28831200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr18:28829200-28831600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr18:28829600-28831600	Enhancers	NHEK	skin
11	chr18:28830000-28835200	Weak transcription	HMEC	breast
12	chr18:28830400-28831600	Enhancers	A549	lung
13	chr18:28830400-28835200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr18:28830800-28831800	Strong transcription	Liver	Liver
15	chr18:28831000-28831600	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr18:28831000-28832600	Weak transcription	HUES64 Cell Line	embryonic stem cell

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