Variant report

Variant	rs62108355
Chromosome Location	chr19:38228211-38228212
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10425671	0.83[EUR][1000 genomes]
rs11083438	0.80[AMR][1000 genomes]
rs11083439	0.80[AMR][1000 genomes]
rs11665877	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11667454	0.90[EUR][1000 genomes]
rs11667457	0.90[EUR][1000 genomes]
rs11668434	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11668558	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11670655	0.90[EUR][1000 genomes]
rs11672077	0.90[EUR][1000 genomes]
rs11883392	0.83[EUR][1000 genomes]
rs12462485	0.81[AMR][1000 genomes]
rs12972712	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12981237	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12982288	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12983298	0.90[EUR][1000 genomes]
rs17306508	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1871197	0.90[EUR][1000 genomes]
rs2045909	0.82[EUR][1000 genomes]
rs2160640	0.90[EUR][1000 genomes]
rs2291000	0.83[EUR][1000 genomes]
rs2385116	0.89[EUR][1000 genomes]
rs241937	0.81[AMR][1000 genomes]
rs241940	0.85[AMR][1000 genomes]
rs241941	0.85[AMR][1000 genomes]
rs241942	0.85[AMR][1000 genomes]
rs241943	0.85[AMR][1000 genomes]
rs241944	0.85[AMR][1000 genomes]
rs241946	0.85[AMR][1000 genomes]
rs241947	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs241953	0.91[EUR][1000 genomes]
rs241957	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs241959	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs241960	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2909106	0.93[EUR][1000 genomes]
rs2927741	0.90[EUR][1000 genomes]
rs2972453	0.89[EUR][1000 genomes]
rs2972454	0.87[EUR][1000 genomes]
rs2972456	0.89[EUR][1000 genomes]
rs2972459	0.89[EUR][1000 genomes]
rs3112435	0.97[EUR][1000 genomes]
rs34351186	0.87[EUR][1000 genomes]
rs34607899	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34782935	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34949193	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35015599	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35214625	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35273320	0.91[EUR][1000 genomes]
rs35415221	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs36020184	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs36092052	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3752365	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4273159	0.83[EUR][1000 genomes]
rs4482404	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4802066	0.85[EUR][1000 genomes]
rs4802134	0.86[AMR][1000 genomes]
rs57308437	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62108304	0.90[EUR][1000 genomes]
rs62108339	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6508738	0.83[EUR][1000 genomes]
rs7253174	0.86[EUR][1000 genomes]
rs7254170	0.86[EUR][1000 genomes]
rs7254828	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8111400	0.82[AMR][1000 genomes]
rs856302	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs856309	0.83[AMR][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	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv833820	chr19:38190721-38414049	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38210800-38229400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr19:38211000-38228400	Weak transcription	Fetal Muscle Leg	muscle
3	chr19:38211000-38228600	Weak transcription	Brain Substantia Nigra	brain
4	chr19:38211000-38229200	Weak transcription	Fetal Kidney	kidney
5	chr19:38211000-38229200	Weak transcription	Fetal Muscle Trunk	muscle
6	chr19:38211000-38229200	Weak transcription	Left Ventricle	heart
7	chr19:38211000-38229400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr19:38211000-38229400	Weak transcription	Brain Germinal Matrix	brain
9	chr19:38211000-38229400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr19:38211000-38230200	Weak transcription	Hela-S3	cervix
11	chr19:38211200-38229200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr19:38211200-38229200	Weak transcription	Fetal Brain Female	brain
13	chr19:38211200-38229200	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr19:38218400-38229200	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr19:38221200-38241800	ZNF genes & repeats	Liver	Liver
16	chr19:38224000-38229400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr19:38224600-38241600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr19:38224800-38229200	Weak transcription	Fetal Lung	lung
19	chr19:38225200-38232400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
20	chr19:38225200-38232400	ZNF genes & repeats	Primary T helper 17 cells PMA-I stimulated	--
21	chr19:38225200-38232400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
22	chr19:38225200-38232400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
23	chr19:38225200-38232400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
24	chr19:38225200-38237200	ZNF genes & repeats	Adipose Nuclei	Adipose
25	chr19:38225400-38231600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr19:38225400-38232400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr19:38225400-38232400	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
28	chr19:38225600-38228400	Weak transcription	Fetal Stomach	stomach
29	chr19:38225600-38229200	Weak transcription	Right Ventricle	heart
30	chr19:38226000-38228600	Weak transcription	Rectal Smooth Muscle	rectum
31	chr19:38226000-38232200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
32	chr19:38226200-38232200	ZNF genes & repeats	Primary T cells from cord blood	blood
33	chr19:38226200-38232400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr19:38226400-38229200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr19:38226600-38229200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
36	chr19:38226800-38228400	Weak transcription	Colon Smooth Muscle	Colon
37	chr19:38226800-38228800	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr19:38227200-38231600	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
39	chr19:38227400-38231000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
40	chr19:38227400-38232400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr19:38227400-38233600	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
42	chr19:38227600-38228800	ZNF genes & repeats	Fetal Intestine Small	intestine
43	chr19:38227600-38230800	ZNF genes & repeats	Brain Hippocampus Middle	brain
44	chr19:38227600-38231600	ZNF genes & repeats	Ovary	ovary
45	chr19:38227800-38229200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
46	chr19:38227800-38229600	ZNF genes & repeats	Pancreas	Pancrea
47	chr19:38228000-38229200	Weak transcription	Stomach Smooth Muscle	stomach
48	chr19:38228200-38229400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr19:38228200-38229800	Weak transcription	Fetal Brain Male	brain
50	chr19:38228200-38231400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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