Variant report

Variant	rs852925
Chromosome Location	chr6:72182516-72182517
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-B3GAT2-6	chr6:72180870-72182983	NONHSAT113515
2	lnc-B3GAT2-6	chr6:72180870-72182983	ucscGeneNc_uc003pfz_1

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10155718	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1738072	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs492196	0.83[EUR][1000 genomes]
rs503993	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs504983	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs524110	0.83[EUR][1000 genomes]
rs547558	0.83[EUR][1000 genomes]
rs548456	0.83[EUR][1000 genomes]
rs555643	0.83[EUR][1000 genomes]
rs573317	0.82[ASN][1000 genomes]
rs580319	0.83[EUR][1000 genomes]
rs852919	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs852920	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs852922	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs852923	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs852924	0.97[ASN][1000 genomes]
rs852926	0.97[ASN][1000 genomes]
rs852927	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs852929	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs852930	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs852931	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs852961	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs852962	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs852971	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830684	chr6:72094842-72282684	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	488 gene(s)	inside rSNPs	diseases
2	nsv1025409	chr6:72175998-72205044	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72178600-72187800	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr6:72179200-72183400	Weak transcription	Adipose Nuclei	Adipose
3	chr6:72179400-72183400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:72179400-72183400	Weak transcription	Fetal Lung	lung
5	chr6:72179400-72186600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:72179400-72186800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:72179400-72191200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr6:72179600-72182800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr6:72179600-72183400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:72179600-72183800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr6:72179600-72183800	Weak transcription	Fetal Kidney	kidney
12	chr6:72179800-72183000	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr6:72179800-72183400	Weak transcription	NHLF	lung
14	chr6:72179800-72185800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr6:72180000-72183000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr6:72180000-72183000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:72180000-72183200	Weak transcription	Osteobl	bone
18	chr6:72180000-72183400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:72180000-72183400	Weak transcription	NHDF-Ad	bronchial
20	chr6:72181200-72183600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:72182200-72183400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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