Variant report

Variant	rs2366542
Chromosome Location	chr3:20899527-20899528
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1078333	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11128977	0.87[EUR][1000 genomes]
rs11710447	0.93[ASN][1000 genomes]
rs1391857	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1391858	0.92[ASN][1000 genomes]
rs1499008	0.89[EUR][1000 genomes]
rs4858274	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4858276	0.86[EUR][1000 genomes]
rs4858277	0.81[AFR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55912973	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62236016	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62236020	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876598	chr3:20242143-20970042	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv999025	chr3:20738244-21042249	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv834629	chr3:20878902-21057592	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv1831300	chr3:20886763-20919920	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv1850674	chr3:20886763-20919920	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	esv1826380	chr3:20895742-20970042	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:20895600-20899600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr3:20895800-20899600	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr3:20895800-20901800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr3:20895800-20901800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr3:20898800-20899800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr3:20898800-20899800	Enhancers	NH-A	brain
7	chr3:20899200-20900600	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr3:20899400-20899800	Enhancers	Muscle Satellite Cultured Cells	--
9	chr3:20899400-20900400	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr3:20899400-20900600	Enhancers	HUES64 Cell Line	embryonic stem cell

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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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