Variant report

Variant	rs1965540
Chromosome Location	chr3:179955792-179955793
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs13327114	0.80[AFR][1000 genomes]
rs1543266	0.91[AFR][1000 genomes]
rs16831253	0.83[AFR][1000 genomes]
rs16831270	0.86[AFR][1000 genomes]
rs2090762	0.90[YRI][hapmap]
rs2091272	0.85[YRI][hapmap]
rs28373443	0.86[AFR][1000 genomes]
rs28545820	0.88[AFR][1000 genomes]
rs28701054	0.85[AFR][1000 genomes]
rs2879655	0.93[AFR][1000 genomes]
rs57727445	0.88[AFR][1000 genomes]
rs60008753	0.87[AFR][1000 genomes]
rs6765816	0.84[AFR][1000 genomes]
rs6765906	0.84[AFR][1000 genomes]
rs6776289	0.93[AFR][1000 genomes]
rs6779403	0.86[AFR][1000 genomes]
rs6800776	0.84[YRI][hapmap]
rs6804532	0.84[AFR][1000 genomes]
rs6809894	0.83[AFR][1000 genomes]
rs73885453	0.90[AFR][1000 genomes]
rs73885473	0.84[AFR][1000 genomes]
rs7614651	0.92[AFR][1000 genomes]
rs7628443	0.92[AFR][1000 genomes]
rs7635460	0.89[AFR][1000 genomes]
rs9815044	0.84[AFR][1000 genomes]
rs9819315	0.81[AFR][1000 genomes]
rs9825264	0.92[AFR][1000 genomes]
rs9826576	0.90[AFR][1000 genomes]
rs9827331	0.85[AFR][1000 genomes]
rs9830454	0.88[AFR][1000 genomes]
rs9832076	0.84[AFR][1000 genomes]
rs9836941	0.88[AFR][1000 genomes]
rs9841642	0.84[AFR][1000 genomes]
rs9842405	0.80[AFR][1000 genomes]
rs9849568	0.93[AFR][1000 genomes]
rs9863397	0.90[AFR][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	nsv1012271	chr3:179806875-180234871	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv878040	chr3:179823887-180128288	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv997388	chr3:179899279-180172349	Enhancers Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv536817	chr3:179899279-180172349	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179953800-179967200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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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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