Variant report

Variant	rs57709834
Chromosome Location	chr5:60709670-60709671
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	chr5:60703951..60706510-chr5:60708254..60709801,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10454818	1.00[AFR][1000 genomes]
rs10514910	0.85[ASN][1000 genomes]
rs12517679	0.82[ASN][1000 genomes]
rs12519658	0.85[ASN][1000 genomes]
rs12520195	0.86[ASN][1000 genomes]
rs16891822	0.86[ASN][1000 genomes]
rs16891983	0.86[ASN][1000 genomes]
rs16892286	0.85[ASN][1000 genomes]
rs16892307	0.85[ASN][1000 genomes]
rs16892374	0.85[ASN][1000 genomes]
rs1986251	1.00[AFR][1000 genomes]
rs2340226	1.00[AFR][1000 genomes]
rs35102220	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35432189	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4590138	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56885035	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6893130	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73107409	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7445500	1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028884	chr5:60414723-60732779	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:60682000-60709800	Weak transcription	Left Ventricle	heart
2	chr5:60682600-60712400	Weak transcription	Esophagus	oesophagus
3	chr5:60687600-60711800	Weak transcription	Aorta	Aorta
4	chr5:60698000-60725400	Weak transcription	Spleen	Spleen
5	chr5:60704800-60709800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr5:60704800-60709800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr5:60704800-60709800	Weak transcription	Pancreas	Pancrea
8	chr5:60705200-60727200	Weak transcription	Fetal Stomach	stomach
9	chr5:60705400-60713400	Weak transcription	Brain Germinal Matrix	brain
10	chr5:60705400-60713600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr5:60705600-60712200	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr5:60705600-60719000	Weak transcription	Fetal Brain Male	brain
13	chr5:60705800-60709800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr5:60705800-60709800	Weak transcription	Liver	Liver
15	chr5:60705800-60710400	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr5:60705800-60711400	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr5:60706000-60709800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr5:60706000-60709800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr5:60706000-60709800	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr5:60706000-60709800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr5:60706000-60709800	Weak transcription	Psoas Muscle	Psoas
22	chr5:60706000-60709800	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr5:60706000-60709800	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr5:60706000-60709800	Weak transcription	NHLF	lung
25	chr5:60706000-60710000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr5:60706000-60710600	Weak transcription	Stomach Mucosa	stomach
27	chr5:60706000-60711000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr5:60706000-60711400	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr5:60706000-60711800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr5:60706000-60711800	Weak transcription	Fetal Kidney	kidney
31	chr5:60706000-60712200	Weak transcription	Small Intestine	intestine
32	chr5:60706000-60713400	Weak transcription	Adipose Nuclei	Adipose
33	chr5:60706000-60713600	Weak transcription	Primary B cells from cord blood	blood
34	chr5:60706000-60719200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr5:60706000-60721400	Weak transcription	Fetal Intestine Large	intestine
36	chr5:60706000-60728000	Weak transcription	Fetal Intestine Small	intestine
37	chr5:60706200-60709800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr5:60706200-60709800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr5:60706200-60709800	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr5:60706200-60709800	Weak transcription	Placenta	Placenta
41	chr5:60706200-60710800	Weak transcription	NHEK	skin
42	chr5:60706200-60711000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr5:60706200-60711600	Weak transcription	HMEC	breast
44	chr5:60706200-60711800	Weak transcription	Primary T cells from cord blood	blood
45	chr5:60706200-60712000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr5:60706200-60719400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr5:60706200-60727800	Weak transcription	HUVEC	blood vessel
48	chr5:60707000-60711800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr5:60707000-60711800	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr5:60707000-60711800	Weak transcription	Osteobl	bone

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