Variant report

Variant	rs1558038
Chromosome Location	chr7:108061588-108061589
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1014113	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1016040	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10224567	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10236888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10953570	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12531222	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1558036	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1859766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1859776	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2057981	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2057982	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2214912	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2300047	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4591957	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6942769	0.81[AMR][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	esv3348839	chr7:107377311-108286538	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	91 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:108055000-108062600	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr7:108056600-108062400	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr7:108056800-108071000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr7:108057000-108062400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr7:108057200-108067200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr7:108057600-108065800	Weak transcription	NHEK	skin
7	chr7:108057600-108066000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr7:108057600-108067000	Weak transcription	Brain Cingulate Gyrus	brain
9	chr7:108057600-108069000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr7:108057800-108064200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr7:108058400-108061600	Bivalent Enhancer	Primary hematopoietic stem cells	blood
12	chr7:108058800-108067400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr7:108058800-108071200	Weak transcription	Pancreas	Pancrea
14	chr7:108059000-108061800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr7:108059200-108063000	Flanking Active TSS	A549	lung
16	chr7:108059400-108061600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr7:108059600-108062000	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr7:108059800-108073400	Weak transcription	Fetal Brain Female	brain
19	chr7:108060400-108062600	Enhancers	HSMMtube	muscle
20	chr7:108060600-108061600	Flanking Active TSS	HUVEC	blood vessel
21	chr7:108060600-108061800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr7:108060600-108061800	Enhancers	HSMM	muscle
23	chr7:108060800-108061600	Enhancers	NH-A	brain
24	chr7:108060800-108062600	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr7:108061200-108061600	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr7:108061200-108061800	Weak transcription	Brain Angular Gyrus	brain
27	chr7:108061200-108062200	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr7:108061200-108067000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr7:108061400-108061800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr7:108061400-108062000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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