Variant report

Variant	rs2900067
Chromosome Location	chr5:112484261-112484262
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:112482887..112485655-chr5:112487737..112490349,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10040328	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10068491	1.00[CEU][hapmap];0.80[YRI][hapmap];0.82[EUR][1000 genomes]
rs10519334	0.87[CEU][hapmap]
rs10519336	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13186032	0.84[ASN][1000 genomes]
rs1443689	0.84[ASN][1000 genomes]
rs1443693	0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1947026	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2165929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2165931	0.81[EUR][1000 genomes]
rs4078252	0.85[CHB][hapmap]
rs4705796	0.84[CEU][hapmap]
rs6594686	0.84[ASN][1000 genomes]
rs6594687	0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6859611	0.84[ASN][1000 genomes]
rs7702177	0.81[JPT][hapmap]

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:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112467400-112493200	Weak transcription	Fetal Muscle Trunk	muscle
2	chr5:112470200-112491000	Weak transcription	Fetal Kidney	kidney
3	chr5:112477200-112485400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:112477400-112486600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:112477400-112486600	Weak transcription	Right Atrium	heart
6	chr5:112477400-112489200	Weak transcription	Fetal Muscle Leg	muscle
7	chr5:112477400-112500600	Weak transcription	Fetal Stomach	stomach
8	chr5:112478000-112485600	Weak transcription	Pancreas	Pancrea
9	chr5:112478000-112497000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr5:112479200-112485200	Weak transcription	Liver	Liver
11	chr5:112479200-112490000	Weak transcription	Aorta	Aorta
12	chr5:112479400-112489600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr5:112479800-112485600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr5:112480400-112487200	Weak transcription	Right Ventricle	heart
15	chr5:112481400-112496000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr5:112481600-112485400	Weak transcription	Ovary	ovary
17	chr5:112481800-112486400	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr5:112481800-112487800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr5:112482000-112484400	Enhancers	Fetal Heart	heart
20	chr5:112482600-112491400	Weak transcription	Adipose Nuclei	Adipose
21	chr5:112482800-112484400	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr5:112483000-112496800	Weak transcription	HMEC	breast
23	chr5:112483200-112495800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr5:112483400-112488800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr5:112483400-112489200	Weak transcription	NHLF	lung
26	chr5:112483400-112490000	Weak transcription	Left Ventricle	heart
27	chr5:112483400-112491800	Weak transcription	NHEK	skin
28	chr5:112483400-112494600	Weak transcription	Psoas Muscle	Psoas
29	chr5:112483600-112485200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr5:112483600-112485400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr5:112483600-112485400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr5:112483600-112485400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr5:112483600-112485600	Weak transcription	Osteobl	bone
34	chr5:112483600-112486400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr5:112483600-112486600	Weak transcription	Gastric	stomach
36	chr5:112483600-112488800	Weak transcription	NHDF-Ad	bronchial
37	chr5:112483600-112489200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr5:112483800-112485400	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr5:112483800-112485600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr5:112484000-112485400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr5:112484000-112487000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr5:112484200-112484400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr5:112484200-112485400	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr5:112484200-112485400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr5:112484200-112491800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr5:112484200-112495600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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