Variant report

Variant	rs12656804
Chromosome Location	chr5:59574762-59574763
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10461373	0.82[CEU][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10461452	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs10461453	0.87[EUR][1000 genomes]
rs10514890	0.82[CEU][hapmap];0.84[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10514891	0.82[CEU][hapmap];0.84[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10514892	0.82[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10514895	0.82[CEU][hapmap];0.89[EUR][1000 genomes]
rs12653662	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12656836	0.82[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12656871	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs12659623	0.82[CEU][hapmap];0.84[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13158470	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13158573	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13159724	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13178509	0.82[CEU][hapmap];0.84[CHB][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13185075	0.82[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16877859	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs16877926	0.82[CEU][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16877953	0.82[CEU][hapmap]
rs16877954	0.82[CEU][hapmap]
rs16877976	0.82[CEU][hapmap]
rs34114616	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34757284	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34762984	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35022567	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35250060	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35813355	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35955333	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4274945	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4276368	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4515249	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4700373	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6880937	0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71628002	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71630003	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71630005	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7711621	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7711707	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7718384	0.82[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7731452	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7735398	0.84[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59559600-59584800	Weak transcription	Primary B cells from cord blood	blood
2	chr5:59561600-59576600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr5:59567400-59581600	Weak transcription	Fetal Brain Male	brain
4	chr5:59568400-59574800	Weak transcription	Aorta	Aorta
5	chr5:59573400-59574800	Enhancers	HUVEC	blood vessel
6	chr5:59574000-59577000	Weak transcription	A549	lung
7	chr5:59574400-59579400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr5:59574600-59576800	Weak transcription	HepG2	liver

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