Variant report

Variant	rs16877976
Chromosome Location	chr5:59678889-59678890
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:59678290..59679528-chr5:59881870..59883189,3	MCF-7	breast:
2	chr5:59105509..59106419-chr5:59678283..59679226,3	MCF-7	breast:
3	chr5:59590961..59591565-chr5:59678761..59679630,2	MCF-7	breast:
4	chr5:59109590..59110214-chr5:59678255..59679111,2	MCF-7	breast:
5	chr5:59590922..59592157-chr5:59678281..59679194,10	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10461373	0.89[CEU][hapmap]
rs10461452	1.00[CEU][hapmap]
rs10514890	0.89[CEU][hapmap]
rs10514891	0.89[CEU][hapmap]
rs10514892	0.89[CEU][hapmap]
rs10514895	0.89[CEU][hapmap]
rs10514896	0.88[CEU][hapmap];0.93[JPT][hapmap];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1108977	0.88[ASN][1000 genomes]
rs12188899	0.91[ASN][1000 genomes]
rs12653662	0.80[CEU][hapmap]
rs12656804	0.82[CEU][hapmap]
rs12656836	0.89[CEU][hapmap]
rs12656871	0.89[CEU][hapmap]
rs12659623	0.89[CEU][hapmap]
rs13158573	0.85[CEU][hapmap]
rs13178509	0.89[CEU][hapmap]
rs13185075	0.89[CEU][hapmap]
rs152312	0.93[JPT][hapmap]
rs16877859	1.00[CEU][hapmap]
rs16877926	0.89[CEU][hapmap]
rs16877953	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16877954	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs173591	0.93[JPT][hapmap]
rs251726	0.93[JPT][hapmap]
rs26951	0.93[JPT][hapmap]
rs27224	0.84[JPT][hapmap]
rs2961773	0.88[CEU][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2961774	0.87[CEU][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34000941	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34761935	0.91[ASN][1000 genomes]
rs36043303	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs37686	0.83[ASN][1000 genomes]
rs37687	0.83[ASN][1000 genomes]
rs37689	0.82[ASN][1000 genomes]
rs37692	0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs37696	0.84[ASN][1000 genomes]
rs37703	0.80[ASN][1000 genomes]
rs37704	0.84[ASN][1000 genomes]
rs37705	0.84[ASN][1000 genomes]
rs37706	0.84[ASN][1000 genomes]
rs37707	0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs37708	0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs37709	0.84[ASN][1000 genomes]
rs37761	1.00[JPT][hapmap]
rs37762	0.93[JPT][hapmap]
rs39726	0.81[ASN][1000 genomes]
rs40219	0.93[JPT][hapmap]
rs40361	0.80[ASN][1000 genomes]
rs42222	0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs4700373	0.87[CEU][hapmap]
rs615429	0.86[JPT][hapmap]
rs702552	0.86[JPT][hapmap]
rs702554	0.93[JPT][hapmap]
rs7711621	0.85[CEU][hapmap]
rs7718384	0.89[CEU][hapmap]
rs7735398	0.80[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025856	chr5:59188419-59928852	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv830316	chr5:59480269-59689829	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv598288	chr5:59627555-60003460	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
4	nsv1015381	chr5:59678425-59772485	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv1034331	chr5:59678773-59773467	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 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	chr5:59647200-59694200	Weak transcription	Primary B cells from cord blood	blood
2	chr5:59662600-59680200	Weak transcription	Stomach Smooth Muscle	stomach
3	chr5:59675800-59680200	Weak transcription	Aorta	Aorta
4	chr5:59678400-59679000	Enhancers	Colon Smooth Muscle	Colon
5	chr5:59678600-59679400	Enhancers	Rectal Smooth Muscle	rectum

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