Variant report

Variant	rs59494679
Chromosome Location	chr5:112460584-112460585
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:112459886..112461931-chr5:112462862..112464863,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10478111	0.86[ASN][1000 genomes]
rs11241194	0.86[ASN][1000 genomes]
rs13178451	0.88[EUR][1000 genomes]
rs13328205	0.92[ASN][1000 genomes]
rs1822490	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2044237	0.86[ASN][1000 genomes]
rs4235789	0.84[AMR][1000 genomes]
rs4705790	0.88[ASN][1000 genomes]
rs55690053	0.86[ASN][1000 genomes]
rs55728256	0.86[ASN][1000 genomes]
rs56216225	0.85[ASN][1000 genomes]
rs57044242	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57876684	0.84[AMR][1000 genomes]
rs58169183	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58572166	0.84[AMR][1000 genomes]
rs58986551	0.84[AMR][1000 genomes]
rs59915546	0.86[ASN][1000 genomes]
rs60498444	0.84[AMR][1000 genomes]
rs60853585	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61409374	0.86[ASN][1000 genomes]
rs61708522	0.84[AMR][1000 genomes]
rs73239115	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73778948	0.85[ASN][1000 genomes]
rs7701321	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7722357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7725873	0.86[ASN][1000 genomes]
rs7735738	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];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	nsv599396	chr5:112408944-112853189	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112431200-112461600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr5:112451000-112460600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:112451000-112478800	Weak transcription	Aorta	Aorta
4	chr5:112453800-112461800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:112454600-112460600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr5:112454800-112460600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr5:112455000-112462200	Enhancers	Fetal Heart	heart
8	chr5:112455400-112461400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr5:112455400-112461400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr5:112456600-112467200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr5:112457400-112462000	Enhancers	Adipose Nuclei	Adipose
12	chr5:112458400-112474200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr5:112458600-112474000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr5:112458600-112477000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr5:112458800-112476600	Weak transcription	NHEK	skin
16	chr5:112459200-112460800	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr5:112459200-112461400	Enhancers	Right Ventricle	heart
18	chr5:112459200-112462000	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr5:112459400-112460800	Enhancers	Brain Germinal Matrix	brain
20	chr5:112459400-112460800	Enhancers	Fetal Kidney	kidney
21	chr5:112459400-112461600	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr5:112459400-112461600	Enhancers	Fetal Brain Female	brain
23	chr5:112459400-112468400	Weak transcription	NHDF-Ad	bronchial
24	chr5:112459600-112460600	Weak transcription	Fetal Muscle Leg	muscle
25	chr5:112459600-112460600	Weak transcription	Pancreas	Pancrea
26	chr5:112459600-112461800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr5:112459600-112462200	Enhancers	Liver	Liver
28	chr5:112459600-112462800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr5:112459800-112460600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr5:112459800-112462600	Enhancers	Cortex derived primary cultured neurospheres	brain
31	chr5:112460000-112460600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr5:112460000-112460800	Enhancers	Fetal Brain Male	brain
33	chr5:112460000-112461200	Enhancers	Pancreatic Islets	Pancreatic Islet
34	chr5:112460000-112461600	Enhancers	Fetal Lung	lung
35	chr5:112460000-112461800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr5:112460200-112460600	Enhancers	Stomach Smooth Muscle	stomach
37	chr5:112460200-112461000	Enhancers	Right Atrium	heart
38	chr5:112460200-112461400	Enhancers	Left Ventricle	heart
39	chr5:112460200-112462000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr5:112460400-112460800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr5:112460400-112460800	Enhancers	Psoas Muscle	Psoas
42	chr5:112460400-112461000	Enhancers	Brain Hippocampus Middle	brain
43	chr5:112460400-112461400	Enhancers	Ovary	ovary

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