Variant report

Variant	rs653885
Chromosome Location	chr11:84765994-84765995
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:84760678..84762987-chr11:84764753..84766897,2	MCF-7	breast:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10792795	0.93[YRI][hapmap]
rs10792796	0.81[ASN][1000 genomes]
rs10898341	0.87[YRI][hapmap]
rs11234262	0.90[YRI][hapmap]
rs11234263	0.90[YRI][hapmap]
rs11607636	0.81[JPT][hapmap]
rs1532312	0.81[JPT][hapmap];0.82[YRI][hapmap]
rs2444253	1.00[CEU][hapmap];0.90[YRI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2508322	0.96[CEU][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap]
rs349062	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs349063	0.96[CEU][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs349067	0.86[JPT][hapmap]
rs349068	0.96[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs349069	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs349080	0.87[YRI][hapmap]
rs349084	0.86[YRI][hapmap]
rs349086	0.81[YRI][hapmap]
rs349089	0.84[CHB][hapmap];0.87[YRI][hapmap];0.80[ASN][1000 genomes]
rs3844142	0.83[ASN][1000 genomes]
rs3851174	0.87[YRI][hapmap]
rs3907015	0.93[YRI][hapmap]
rs4121473	0.84[YRI][hapmap]
rs4271408	0.96[CEU][hapmap];0.82[CHB][hapmap];0.93[YRI][hapmap]
rs483220	0.90[JPT][hapmap]
rs4944509	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs506422	0.95[CEU][hapmap];0.89[CHB][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs550970	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap];0.89[YRI][hapmap]
rs565044	0.91[CEU][hapmap];0.81[AMR][1000 genomes]
rs573767	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs582399	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs613972	1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[ASN][1000 genomes]
rs616320	0.90[YRI][hapmap];0.80[ASN][1000 genomes]
rs619848	0.94[JPT][hapmap];0.90[YRI][hapmap]
rs630015	0.84[CHB][hapmap]
rs633703	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs634050	0.96[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs635860	1.00[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs652852	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6592223	0.84[YRI][hapmap]
rs6592229	0.86[JPT][hapmap];0.93[YRI][hapmap]
rs659414	0.86[JPT][hapmap]
rs678796	0.86[JPT][hapmap]
rs7105774	0.85[YRI][hapmap]
rs7111336	0.86[JPT][hapmap];0.90[YRI][hapmap]
rs7112064	0.93[YRI][hapmap]
rs7125600	0.86[YRI][hapmap]
rs7127826	0.80[YRI][hapmap]
rs7482922	0.86[YRI][hapmap]
rs7929647	0.90[YRI][hapmap]
rs7931733	0.94[CHB][hapmap];0.89[ASN][1000 genomes]
rs7949547	0.80[YRI][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	nsv948410	chr11:83918339-84812001	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1048051	chr11:84419442-84784233	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv541109	chr11:84419442-84784233	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv430415	chr11:84661652-84833852	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1055097	chr11:84672444-84810441	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1040393	chr11:84708402-84866594	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv527535	chr11:84724795-84895033	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv528491	chr11:84724795-84895033	Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv1044370	chr11:84748993-85293233	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	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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