Variant report

Variant	rs58620120
Chromosome Location	chr3:140194204-140194205
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs58189633	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58295092	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59314875	0.85[AFR][1000 genomes]
rs60209606	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61110020	1.00[AMR][1000 genomes]
rs61164256	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs6786587	0.85[AFR][1000 genomes]
rs6789331	0.92[AFR][1000 genomes]
rs72987112	1.00[AMR][1000 genomes]
rs72987140	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72991079	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72991084	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8179951	0.81[AFR][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	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv34489	chr3:140009020-140469302	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2757012	chr3:140009220-140460228	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv591863	chr3:140126067-140274442	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	esv3412848	chr3:140193995-140194235	Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140186600-140197800	Weak transcription	Adipose Nuclei	Adipose
2	chr3:140187600-140194800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr3:140188600-140195800	Weak transcription	Ovary	ovary
4	chr3:140192200-140219800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:140192600-140197800	Strong transcription	HSMMtube	muscle

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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