Variant report

Variant	rs6097892
Chromosome Location	chr20:52910040-52910041
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1293129	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1293131	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1477727	0.82[ASN][1000 genomes]
rs28654312	1.00[ASN][1000 genomes]
rs4535116	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6013952	1.00[ASN][1000 genomes]
rs6013961	0.88[ASN][1000 genomes]
rs6013962	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6023090	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6023094	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6023100	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6023101	0.88[ASN][1000 genomes]
rs6023103	0.88[ASN][1000 genomes]
rs6097877	0.82[ASN][1000 genomes]
rs6097894	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6123370	0.82[ASN][1000 genomes]
rs6127164	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73914345	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv586224	chr20:52474850-53279490	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	338 gene(s)	inside rSNPs	diseases
2	nsv834010	chr20:52759824-52932939	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
3	nsv834011	chr20:52858341-53086042	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
4	nsv962638	chr20:52883415-52917517	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6097892	CREB3L2	trans	lymphoblastoid	RTeQTL

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52908200-52910200	Enhancers	Colon Smooth Muscle	Colon
2	chr20:52909000-52910200	Enhancers	Osteobl	bone
3	chr20:52909200-52910200	Enhancers	Fetal Stomach	stomach
4	chr20:52909400-52910200	Enhancers	Adipose Nuclei	Adipose
5	chr20:52909400-52910400	Enhancers	Fetal Lung	lung
6	chr20:52909600-52910400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr20:52909800-52910200	Enhancers	Muscle Satellite Cultured Cells	--
8	chr20:52909800-52910400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr20:52909800-52910600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr20:52910000-52910400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr20:52910000-52910400	Weak transcription	Hela-S3	cervix
12	chr20:52910000-52915200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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Input of quick search could be:

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

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