Variant report

Variant	rs11135388
Chromosome Location	chr5:92858290-92858291
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs11951859	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11952115	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11952600	0.98[AFR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11960608	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12187239	0.91[EUR][1000 genomes]
rs12188845	0.94[AFR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12188905	0.88[EUR][1000 genomes]
rs1370977	0.91[EUR][1000 genomes]
rs1457101	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17082127	0.93[EUR][1000 genomes]
rs17082129	0.93[EUR][1000 genomes]
rs17083145	0.88[AFR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17083155	0.89[EUR][1000 genomes]
rs17083181	0.93[EUR][1000 genomes]
rs17083191	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17083194	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17083198	0.93[EUR][1000 genomes]
rs17083200	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17083213	0.91[EUR][1000 genomes]
rs17083228	0.89[EUR][1000 genomes]
rs1824153	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1844343	0.89[EUR][1000 genomes]
rs2083227	0.82[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs2344387	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55861967	0.94[AFR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57165666	0.91[EUR][1000 genomes]
rs57690257	0.93[EUR][1000 genomes]
rs59360932	0.91[EUR][1000 genomes]
rs61324921	0.93[EUR][1000 genomes]
rs61352323	0.91[EUR][1000 genomes]
rs6556823	0.81[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs6556824	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6556826	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6866771	0.81[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs6879816	0.91[EUR][1000 genomes]
rs6880843	0.91[EUR][1000 genomes]
rs6889857	0.82[EUR][1000 genomes]
rs73133214	0.91[EUR][1000 genomes]
rs73133217	0.91[EUR][1000 genomes]
rs73133226	0.91[EUR][1000 genomes]
rs73133228	0.91[EUR][1000 genomes]
rs73133239	0.93[EUR][1000 genomes]
rs73133251	0.93[EUR][1000 genomes]
rs73133254	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73133258	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73133261	0.93[EUR][1000 genomes]
rs73133265	0.92[EUR][1000 genomes]
rs73133275	0.93[EUR][1000 genomes]
rs73133278	0.93[EUR][1000 genomes]
rs73133280	0.93[EUR][1000 genomes]
rs73133282	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73133283	0.91[EUR][1000 genomes]
rs73133287	0.91[EUR][1000 genomes]
rs73133289	0.83[EUR][1000 genomes]
rs73133292	0.82[EUR][1000 genomes]
rs73133301	0.86[EUR][1000 genomes]
rs73135313	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73772907	0.86[EUR][1000 genomes]
rs7712899	0.86[EUR][1000 genomes]
rs7715034	0.91[EUR][1000 genomes]
rs7727107	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	nsv882382	chr5:92853645-92891029	Strong transcription ZNF genes & repeats Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	lncRNA	8 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:92815200-92859200	Weak transcription	Fetal Brain Male	brain
2	chr5:92855400-92858600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:92856000-92858800	Weak transcription	HSMM	muscle
4	chr5:92856000-92859000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr5:92856200-92867000	Weak transcription	NHLF	lung
6	chr5:92856200-92867400	Weak transcription	Osteobl	bone
7	chr5:92856200-92868200	Weak transcription	NH-A	brain
8	chr5:92856800-92887200	Weak transcription	HUVEC	blood vessel
9	chr5:92857200-92860400	ZNF genes & repeats	Fetal Lung	lung
10	chr5:92857200-92862600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr5:92857400-92858600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr5:92857400-92858800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr5:92857400-92860200	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr5:92857400-92862400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr5:92857600-92859600	Strong transcription	Stomach Smooth Muscle	stomach
16	chr5:92857600-92861800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr5:92857800-92859400	Strong transcription	Brain Angular Gyrus	brain
18	chr5:92857800-92859400	ZNF genes & repeats	Brain Germinal Matrix	brain
19	chr5:92857800-92859400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr5:92857800-92860600	ZNF genes & repeats	Fetal Brain Female	brain
21	chr5:92857800-92862600	Strong transcription	Muscle Satellite Cultured Cells	--
22	chr5:92857800-92872200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr5:92858000-92859200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr5:92858000-92860200	Strong transcription	Fetal Kidney	kidney
25	chr5:92858000-92860400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr5:92858000-92861200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr5:92858200-92858400	Enhancers	Spleen	Spleen
28	chr5:92858200-92858600	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr5:92858200-92859400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr5:92858200-92859400	Strong transcription	Ovary	ovary
31	chr5:92858200-92859600	ZNF genes & repeats	Fetal Intestine Small	intestine
32	chr5:92858200-92859600	ZNF genes & repeats	Fetal Stomach	stomach

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