Variant report

Variant	rs10079165
Chromosome Location	chr5:108229760-108229761
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10038669	0.90[MEX][hapmap];0.84[TSI][hapmap]
rs10040696	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10044305	0.91[CEU][hapmap];0.82[GIH][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs10060694	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10062204	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10063167	0.81[CEU][hapmap]
rs10073668	0.90[MEX][hapmap];0.84[TSI][hapmap]
rs10477431	0.86[EUR][1000 genomes]
rs13171006	0.87[CEU][hapmap]
rs13180513	0.96[CEU][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1472916	0.83[ASW][hapmap]
rs2081126	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs2081129	0.91[CEU][hapmap];0.87[EUR][1000 genomes]
rs2081130	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28637651	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2900035	0.91[CEU][hapmap];0.86[GIH][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.81[EUR][1000 genomes]
rs34125469	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4604227	0.81[TSI][hapmap]
rs6594338	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6594340	0.84[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6871239	0.82[MEX][hapmap]
rs6874229	0.96[CEU][hapmap];0.90[GIH][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6875320	0.91[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6880284	0.96[CEU][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6882107	0.86[MEX][hapmap]
rs6889550	0.81[EUR][1000 genomes]
rs6891194	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs6895027	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7700630	0.92[ASW][hapmap];0.91[CHB][hapmap];0.96[CHD][hapmap];0.93[JPT][hapmap];0.90[MEX][hapmap];0.85[ASN][1000 genomes]
rs7709267	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7710482	0.82[EUR][1000 genomes]
rs7712834	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7712956	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs7725391	0.86[EUR][1000 genomes]
rs7726708	0.84[EUR][1000 genomes]
rs7731891	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7735235	0.96[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9326747	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs9326748	0.96[CEU][hapmap];0.90[GIH][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9885168	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv471039	chr5:108133967-108245089	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1016343	chr5:108220116-108364687	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv882691	chr5:108229760-108366473	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108173400-108239800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr5:108183800-108260400	Weak transcription	Ovary	ovary
3	chr5:108194600-108260000	Weak transcription	Fetal Intestine Large	intestine
4	chr5:108194800-108236200	Weak transcription	Hela-S3	cervix
5	chr5:108195200-108231600	Weak transcription	Primary hematopoietic stem cells	blood
6	chr5:108195200-108231600	Weak transcription	Psoas Muscle	Psoas
7	chr5:108195200-108234400	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr5:108196800-108230000	Weak transcription	Lung	lung
9	chr5:108197000-108268200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr5:108198600-108229800	Weak transcription	Fetal Muscle Leg	muscle
11	chr5:108198600-108235000	Weak transcription	Fetal Kidney	kidney
12	chr5:108199200-108271400	Weak transcription	Aorta	Aorta
13	chr5:108200200-108232600	Weak transcription	Brain Angular Gyrus	brain
14	chr5:108200200-108246400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr5:108203800-108323400	Weak transcription	Primary B cells from cord blood	blood
16	chr5:108204400-108237800	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr5:108205400-108230200	Weak transcription	Adipose Nuclei	Adipose
18	chr5:108205400-108241400	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr5:108208200-108268800	Weak transcription	Primary T cells from cord blood	blood
20	chr5:108209400-108230000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr5:108209800-108229800	Weak transcription	HSMM	muscle
22	chr5:108209800-108229800	Weak transcription	NHEK	skin
23	chr5:108209800-108234000	Weak transcription	HMEC	breast
24	chr5:108209800-108234400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr5:108212800-108236200	Weak transcription	NHDF-Ad	bronchial
26	chr5:108214200-108272200	Weak transcription	Gastric	stomach
27	chr5:108217200-108233600	Weak transcription	Esophagus	oesophagus
28	chr5:108217200-108236600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr5:108217400-108233200	Weak transcription	Brain Hippocampus Middle	brain
30	chr5:108217400-108244200	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr5:108217400-108253200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr5:108217600-108323200	Weak transcription	Left Ventricle	heart
33	chr5:108217800-108229800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr5:108220800-108230000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr5:108221000-108236200	Weak transcription	NH-A	brain
36	chr5:108221000-108236400	Weak transcription	NHLF	lung
37	chr5:108221000-108241200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr5:108221200-108230000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr5:108221200-108234400	Weak transcription	HUVEC	blood vessel
40	chr5:108221200-108236200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr5:108221200-108236200	Weak transcription	Osteobl	bone
42	chr5:108221400-108280600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr5:108221600-108238200	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr5:108223400-108236800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr5:108223400-108247000	Weak transcription	Brain Substantia Nigra	brain
46	chr5:108223800-108233600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr5:108226600-108230000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr5:108227000-108233400	Weak transcription	Fetal Lung	lung
49	chr5:108227200-108231600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr5:108227400-108234400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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