Variant report

Variant	rs1588909
Chromosome Location	chr3:161388620-161388621
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1106255	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1515725	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1515726	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1588908	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2222055	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4266208	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4472057	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4593045	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441395	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6809783	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7432487	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7652034	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9290089	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820806	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9829196	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9867300	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9879283	0.93[AMR][1000 genomes];0.84[EUR][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	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
2	esv2422309	chr3:161242389-161425932	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv877711	chr3:161275848-161486665	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1004255	chr3:161340249-161476537	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161379000-161391600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:161380000-161393200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:161386800-161390400	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:161388200-161388800	ZNF genes & repeats	Pancreas	Pancrea
5	chr3:161388400-161388800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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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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