Variant report

Variant	rs1429333
Chromosome Location	chr2:141575847-141575848
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:141566441..141569231-chr2:141574009..141576790,2	MCF-7	breast:

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10191182	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1021245	0.81[ASN][1000 genomes]
rs1025337	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs10928073	0.96[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.89[YRI][hapmap]
rs10928074	0.86[CHB][hapmap];0.87[JPT][hapmap];0.80[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1120487	0.96[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.80[YRI][hapmap]
rs1120488	0.96[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.80[YRI][hapmap]
rs1124785	0.88[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.80[YRI][hapmap]
rs11674928	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs11677778	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11678482	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs11684411	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs11686050	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11688766	0.86[CHB][hapmap];0.87[JPT][hapmap];0.89[YRI][hapmap]
rs11694855	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs11893770	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs11895991	0.82[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap]
rs12616902	0.81[AMR][1000 genomes]
rs12620422	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs12621209	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap]
rs12623466	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12691562	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs12691571	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13423554	0.81[CEU][hapmap]
rs13423651	0.88[CEU][hapmap]
rs1429330	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap]
rs1429369	0.89[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17514829	0.81[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap]
rs17515225	0.89[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.89[YRI][hapmap]
rs17515498	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17515899	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17516434	0.96[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap]
rs17516630	0.96[CEU][hapmap]
rs17517552	0.86[CHB][hapmap]
rs17575847	0.96[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1843585	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1963394	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2046506	0.96[CEU][hapmap];0.85[CHB][hapmap];0.87[JPT][hapmap]
rs2171173	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2380889	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2380893	0.93[CEU][hapmap]
rs3828265	0.96[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap]
rs4423546	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4616417	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4954856	0.86[CHB][hapmap];0.87[JPT][hapmap];0.89[YRI][hapmap]
rs4954860	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56313835	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61670185	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62173623	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62173624	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62173626	0.86[AMR][1000 genomes]
rs6429844	0.91[CEU][hapmap]
rs6429845	0.92[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.80[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6429846	0.86[CHB][hapmap];0.86[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6716577	0.81[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap]
rs6720709	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs6720793	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs6722632	0.85[CHB][hapmap]
rs6735489	0.95[CHB][hapmap]
rs6738178	0.81[CEU][hapmap]
rs6749275	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs6749707	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap]
rs6755302	0.81[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs6757066	0.82[ASN][1000 genomes]
rs7571628	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7571766	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7578679	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7606602	0.92[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap]
rs7606833	0.92[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap]
rs9287300	0.95[CHB][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875199	chr2:141409166-141600366	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv875202	chr2:141448312-141587228	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv875203	chr2:141448312-141592252	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv875204	chr2:141496596-141592252	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv875205	chr2:141500692-141592252	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv583198	chr2:141510791-142150620	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv875207	chr2:141517652-141592252	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1003008	chr2:141518795-141763505	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv583199	chr2:141551350-141583206	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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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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