Variant report

Variant	rs6556826
Chromosome Location	chr5:92892591-92892592
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10041792	0.88[JPT][hapmap]
rs1004941	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs10050364	0.86[JPT][hapmap]
rs10051878	1.00[JPT][hapmap]
rs10060331	0.86[JPT][hapmap]
rs10067541	0.88[JPT][hapmap]
rs10071040	0.88[JPT][hapmap]
rs1038686	0.86[JPT][hapmap]
rs1046217	1.00[JPT][hapmap]
rs10476520	0.88[JPT][hapmap]
rs10514376	1.00[JPT][hapmap]
rs11135388	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11951859	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11952115	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11952600	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11960608	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12187239	0.82[EUR][1000 genomes]
rs12188845	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13154650	0.86[JPT][hapmap]
rs13161885	0.86[JPT][hapmap]
rs1370977	0.80[EUR][1000 genomes]
rs1457101	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17082127	0.82[EUR][1000 genomes]
rs17082129	0.82[EUR][1000 genomes]
rs17083145	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17083181	0.82[EUR][1000 genomes]
rs17083191	0.81[EUR][1000 genomes]
rs17083194	0.82[EUR][1000 genomes]
rs17083198	0.82[EUR][1000 genomes]
rs17083200	0.82[EUR][1000 genomes]
rs17083213	0.82[EUR][1000 genomes]
rs17083228	0.80[EUR][1000 genomes]
rs17083278	1.00[JPT][hapmap]
rs17083297	0.86[JPT][hapmap]
rs17312456	0.86[JPT][hapmap]
rs1824153	0.82[EUR][1000 genomes]
rs1844343	0.83[CEU][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs2083227	0.82[EUR][1000 genomes]
rs2344387	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3776601	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs55861967	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57165666	0.80[EUR][1000 genomes]
rs57690257	0.82[EUR][1000 genomes]
rs59360932	0.82[EUR][1000 genomes]
rs61324921	0.82[EUR][1000 genomes]
rs61352323	0.82[EUR][1000 genomes]
rs6556823	0.82[EUR][1000 genomes]
rs6556824	0.82[EUR][1000 genomes]
rs6556829	1.00[JPT][hapmap]
rs6866771	0.81[EUR][1000 genomes]
rs6877616	0.86[JPT][hapmap]
rs6879816	0.82[EUR][1000 genomes]
rs6884138	1.00[JPT][hapmap]
rs6890998	0.86[JPT][hapmap]
rs6895356	0.88[JPT][hapmap]
rs6898507	0.86[JPT][hapmap]
rs73133214	0.80[EUR][1000 genomes]
rs73133217	0.80[EUR][1000 genomes]
rs73133226	0.80[EUR][1000 genomes]
rs73133228	0.80[EUR][1000 genomes]
rs73133239	0.82[EUR][1000 genomes]
rs73133251	0.82[EUR][1000 genomes]
rs73133254	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73133258	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133261	0.82[EUR][1000 genomes]
rs73133265	0.81[EUR][1000 genomes]
rs73133275	0.82[EUR][1000 genomes]
rs73133278	0.82[EUR][1000 genomes]
rs73133280	0.82[EUR][1000 genomes]
rs73133282	0.82[EUR][1000 genomes]
rs73133283	0.82[EUR][1000 genomes]
rs73133287	0.82[EUR][1000 genomes]
rs73133289	0.93[EUR][1000 genomes]
rs73133292	0.91[EUR][1000 genomes]
rs73135313	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7702348	0.88[JPT][hapmap]
rs7702649	0.86[JPT][hapmap]
rs7712388	1.00[JPT][hapmap]
rs7715034	0.80[EUR][1000 genomes]
rs7717718	0.88[JPT][hapmap]
rs7721168	1.00[JPT][hapmap]
rs7721509	0.82[JPT][hapmap]
rs7736624	1.00[JPT][hapmap]
rs9314086	0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022355	chr5:92846496-92911797	Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	n/a
2	nsv537807	chr5:92846496-92911797	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	n/a
3	esv3451945	chr5:92858750-93024740	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv830404	chr5:92868336-93048257	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	esv1819334	chr5:92892591-92956733	Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:92859200-92905000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr5:92859400-92905000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr5:92859400-92905600	Weak transcription	Placenta	Placenta
4	chr5:92859600-92900400	Weak transcription	Fetal Intestine Small	intestine
5	chr5:92860000-92908000	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr5:92868600-92900200	Weak transcription	Hela-S3	cervix
7	chr5:92872800-92895400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr5:92874200-92896800	Weak transcription	Fetal Stomach	stomach
9	chr5:92874800-92894800	Weak transcription	NH-A	brain
10	chr5:92877200-92895000	Weak transcription	HSMM	muscle
11	chr5:92883200-92900800	Weak transcription	Fetal Brain Male	brain
12	chr5:92885600-92899800	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr5:92886600-92899800	Weak transcription	HMEC	breast
14	chr5:92888200-92897800	Weak transcription	Adipose Nuclei	Adipose
15	chr5:92888200-92899800	Weak transcription	HUVEC	blood vessel
16	chr5:92888600-92899800	Weak transcription	NHDF-Ad	bronchial
17	chr5:92889400-92905400	Weak transcription	Fetal Brain Female	brain
18	chr5:92889600-92894800	Weak transcription	NHLF	lung
19	chr5:92889600-92896000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr5:92889600-92898800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr5:92889600-92900200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr5:92889600-92905800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr5:92889600-92909800	Weak transcription	Ovary	ovary
24	chr5:92889800-92900200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr5:92890000-92894600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr5:92890000-92894600	Weak transcription	Osteobl	bone
27	chr5:92890000-92898600	Weak transcription	Fetal Kidney	kidney
28	chr5:92890000-92899800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr5:92890000-92904600	Weak transcription	Stomach Smooth Muscle	stomach
30	chr5:92890600-92894600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr5:92890600-92903200	Weak transcription	Brain Germinal Matrix	brain
32	chr5:92891800-92894000	Genic enhancers	Fetal Lung	lung
33	chr5:92892200-92892600	Genic enhancers	Muscle Satellite Cultured Cells	--
34	chr5:92892400-92894400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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