Variant report

Variant	rs259035
Chromosome Location	chr5:79695370-79695371
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:79692955..79695721-chr5:79761106..79763084,2	MCF-7	breast:
2	chr5:79694018..79695713-chr5:79701443..79703273,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10052497	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10433	1.00[CEU][hapmap];0.86[TSI][hapmap];0.83[EUR][1000 genomes]
rs1097307	1.00[CEU][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1097308	0.88[EUR][1000 genomes]
rs1097309	1.00[CEU][hapmap];0.89[YRI][hapmap];0.88[EUR][1000 genomes]
rs1102116	0.82[EUR][1000 genomes]
rs1103116	0.86[EUR][1000 genomes]
rs1363775	1.00[CEU][hapmap];0.84[YRI][hapmap];0.83[EUR][1000 genomes]
rs16877760	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs168938	0.88[EUR][1000 genomes]
rs168939	1.00[CEU][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes]
rs171821	1.00[CEU][hapmap];0.91[TSI][hapmap];0.93[EUR][1000 genomes]
rs174075	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs1820119	0.86[EUR][1000 genomes]
rs185100	1.00[CEU][hapmap];0.89[YRI][hapmap];0.82[EUR][1000 genomes]
rs187479	0.88[ASW][hapmap];1.00[CEU][hapmap];0.86[TSI][hapmap];0.89[YRI][hapmap];0.83[EUR][1000 genomes]
rs192313	0.89[ASW][hapmap];1.00[CEU][hapmap];0.86[TSI][hapmap];0.89[YRI][hapmap];0.87[EUR][1000 genomes]
rs2112152	0.82[EUR][1000 genomes]
rs248995	1.00[CEU][hapmap]
rs249000	1.00[CEU][hapmap];0.85[YRI][hapmap]
rs249021	1.00[CEU][hapmap];0.89[YRI][hapmap];0.83[EUR][1000 genomes]
rs249024	1.00[CEU][hapmap];0.89[YRI][hapmap];0.82[EUR][1000 genomes]
rs249025	1.00[CEU][hapmap];0.89[YRI][hapmap];0.83[EUR][1000 genomes]
rs249026	1.00[CEU][hapmap];0.89[YRI][hapmap];0.81[EUR][1000 genomes]
rs249027	1.00[CEU][hapmap];0.88[YRI][hapmap];0.83[EUR][1000 genomes]
rs249028	1.00[CEU][hapmap];0.89[YRI][hapmap];0.83[EUR][1000 genomes]
rs249029	0.83[EUR][1000 genomes]
rs249031	0.83[EUR][1000 genomes]
rs249033	1.00[CEU][hapmap];0.89[YRI][hapmap]
rs249037	1.00[CEU][hapmap];0.86[TSI][hapmap];0.83[EUR][1000 genomes]
rs249039	0.88[ASW][hapmap];1.00[CEU][hapmap];0.82[MKK][hapmap];0.82[TSI][hapmap];0.89[YRI][hapmap];0.83[EUR][1000 genomes]
rs2544592	0.88[EUR][1000 genomes]
rs2544593	1.00[CEU][hapmap];0.96[YRI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2544598	1.00[CEU][hapmap];0.83[YRI][hapmap];0.86[EUR][1000 genomes]
rs2544599	0.86[EUR][1000 genomes]
rs2544600	0.83[ASW][hapmap];1.00[CEU][hapmap];0.84[MKK][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.84[EUR][1000 genomes]
rs2544603	0.83[EUR][1000 genomes]
rs2547487	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2547497	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs259025	0.82[ASW][hapmap];1.00[CEU][hapmap];0.81[LWK][hapmap];0.88[MKK][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs259031	0.86[EUR][1000 genomes]
rs259033	0.88[ASW][hapmap];1.00[CEU][hapmap];0.89[YRI][hapmap];0.86[EUR][1000 genomes]
rs259034	0.83[EUR][1000 genomes]
rs259041	0.92[EUR][1000 genomes]
rs259043	0.83[ASW][hapmap];1.00[CEU][hapmap];0.93[LWK][hapmap];0.97[MKK][hapmap];0.91[TSI][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs259055	1.00[CEU][hapmap];0.89[YRI][hapmap];0.91[EUR][1000 genomes]
rs2599508	1.00[CEU][hapmap];0.80[YRI][hapmap];0.82[EUR][1000 genomes]
rs3095851	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs3096111	0.82[EUR][1000 genomes]
rs394076	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs394170	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs399261	0.82[EUR][1000 genomes]
rs401612	0.83[EUR][1000 genomes]
rs408899	0.82[EUR][1000 genomes]
rs701380	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs863163	0.82[EUR][1000 genomes]
rs969567	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948807	chr5:79549207-79805765	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv518480	chr5:79586085-79748382	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv1028027	chr5:79694699-79841752	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:79693600-79696800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr5:79694600-79697000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr5:79695000-79695400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr5:79695000-79695400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr5:79695000-79695400	Enhancers	Primary hematopoietic stem cells	blood
6	chr5:79695000-79695400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr5:79695000-79695400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
8	chr5:79695000-79695600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr5:79695000-79695600	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr5:79695000-79695600	Enhancers	Brain Hippocampus Middle	brain
11	chr5:79695000-79695600	Enhancers	HMEC	breast
12	chr5:79695000-79695600	Enhancers	NHDF-Ad	bronchial
13	chr5:79695000-79695600	Enhancers	NHEK	skin
14	chr5:79695000-79695600	Enhancers	Osteobl	bone
15	chr5:79695000-79695800	Enhancers	Adipose Nuclei	Adipose
16	chr5:79695000-79695800	Enhancers	Brain Inferior Temporal Lobe	brain
17	chr5:79695000-79695800	Enhancers	Brain Substantia Nigra	brain
18	chr5:79695000-79695800	Enhancers	GM12878-XiMat	blood
19	chr5:79695000-79696000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr5:79695000-79696200	Enhancers	Primary B cells from peripheral blood	blood
21	chr5:79695000-79696600	Enhancers	Primary B cells from cord blood	blood
22	chr5:79695200-79695400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr5:79695200-79695600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr5:79695200-79695600	Enhancers	Muscle Satellite Cultured Cells	--
25	chr5:79695200-79695600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr5:79695200-79695600	Enhancers	Hela-S3	cervix
27	chr5:79695200-79695800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr5:79695200-79695800	Enhancers	Brain Anterior Caudate	brain
29	chr5:79695200-79695800	Enhancers	Dnd41	blood
30	chr5:79695200-79695800	Enhancers	K562	blood
31	chr5:79695200-79696400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood

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