Variant report

Variant	rs451056
Chromosome Location	chr3:78846658-78846659
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10511125	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs1386431	1.00[YRI][hapmap]
rs151258	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs162817	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs162871	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs162877	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17016495	1.00[CHB][hapmap]
rs17016507	1.00[CHB][hapmap]
rs17016511	1.00[CHB][hapmap]
rs179690	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1947154	1.00[YRI][hapmap]
rs2125123	1.00[CHB][hapmap]
rs329808	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.88[EUR][1000 genomes]
rs329809	0.88[EUR][1000 genomes]
rs329810	0.88[CEU][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes]
rs333478	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs333479	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs333485	0.86[CEU][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs333488	0.88[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs333489	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs333497	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs333498	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs333503	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs333508	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773230	1.00[CHB][hapmap]
rs404130	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs410943	0.88[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs448782	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs452705	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9858414	1.00[CHB][hapmap]

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	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv877019	chr3:78808850-78877217	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv432459	chr3:78819310-78874310	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78841200-78850600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:78841400-78851600	Weak transcription	Brain Anterior Caudate	brain
3	chr3:78841600-78850800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr3:78843800-78850800	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr3:78844200-78852800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:78844200-78853600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:78844400-78854000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr3:78845800-78846800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:78845800-78846800	Enhancers	Primary T cells from cord blood	blood
10	chr3:78846200-78846800	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr3:78846400-78847400	Weak transcription	HepG2	liver
12	chr3:78846600-78850800	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:78846600-78850800	Weak transcription	Fetal Lung	lung
14	chr3:78846600-78851000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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