Variant report

Variant	rs59426132
Chromosome Location	chr19:38092770-38092771
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:38083431..38085754-chr19:38092128..38093664,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171817	Chromatin interaction
ENSG00000180479	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11083427	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11083428	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11083430	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11665759	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11666662	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11666738	0.99[EUR][1000 genomes]
rs12151280	0.86[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12162238	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12459013	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12460230	0.83[ASN][1000 genomes]
rs12462505	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1478462	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17305326	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2045911	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2126976	0.92[ASN][1000 genomes]
rs2279150	0.82[ASN][1000 genomes]
rs2290999	0.99[EUR][1000 genomes]
rs35205379	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7248397	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73031309	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73031321	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73031322	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73031326	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73033117	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73033129	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73033139	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73033145	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73035158	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73035164	0.98[EUR][1000 genomes]
rs73037036	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73039018	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38086400-38093400	Weak transcription	Gastric	stomach
2	chr19:38086400-38095600	Weak transcription	Fetal Muscle Trunk	muscle
3	chr19:38086400-38095600	Weak transcription	Stomach Mucosa	stomach
4	chr19:38086600-38092800	Weak transcription	Fetal Muscle Leg	muscle
5	chr19:38086600-38098200	Weak transcription	Colonic Mucosa	Colon
6	chr19:38086600-38098800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr19:38086600-38099400	Weak transcription	Fetal Stomach	stomach
8	chr19:38086600-38103200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr19:38086800-38094000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr19:38086800-38095600	Weak transcription	Fetal Kidney	kidney
11	chr19:38087200-38093200	Weak transcription	Fetal Intestine Small	intestine
12	chr19:38087200-38099400	Weak transcription	Rectal Smooth Muscle	rectum
13	chr19:38087200-38100200	Weak transcription	Right Ventricle	heart
14	chr19:38087200-38103000	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr19:38087800-38094400	Weak transcription	Fetal Brain Male	brain
16	chr19:38087800-38107400	ZNF genes & repeats	Liver	Liver
17	chr19:38088800-38093800	ZNF genes & repeats	Ovary	ovary
18	chr19:38088800-38094000	Strong transcription	Primary T cells from cord blood	blood
19	chr19:38088800-38094000	Strong transcription	Primary T cells fromperipheralblood	blood
20	chr19:38088800-38094600	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr19:38089000-38093400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
22	chr19:38089000-38093800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr19:38089000-38094000	Strong transcription	Skeletal Muscle Female	skeletal muscle
24	chr19:38089000-38094400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr19:38089200-38093600	Strong transcription	Brain Substantia Nigra	brain
26	chr19:38089200-38093800	Strong transcription	Brain Angular Gyrus	brain
27	chr19:38089200-38094000	Strong transcription	Left Ventricle	heart
28	chr19:38089200-38107200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
29	chr19:38089400-38092800	Strong transcription	Stomach Smooth Muscle	stomach
30	chr19:38089400-38093400	Strong transcription	Skeletal Muscle Male	skeletal muscle
31	chr19:38089400-38093600	Strong transcription	Brain Hippocampus Middle	brain
32	chr19:38089400-38093800	Strong transcription	Brain Cingulate Gyrus	brain
33	chr19:38089400-38094200	Strong transcription	Brain Inferior Temporal Lobe	brain
34	chr19:38089400-38094600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr19:38089400-38095200	Strong transcription	Brain Anterior Caudate	brain
36	chr19:38089600-38094600	Strong transcription	Primary T killer memory cells from peripheral blood	blood
37	chr19:38089600-38095200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr19:38089800-38093600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr19:38090400-38093800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr19:38090400-38094200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr19:38090400-38097600	ZNF genes & repeats	Adipose Nuclei	Adipose
42	chr19:38090400-38105200	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
43	chr19:38090600-38092800	Strong transcription	Duodenum Mucosa	Duodenum
44	chr19:38090600-38105400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
45	chr19:38090800-38093600	Strong transcription	Fetal Brain Female	brain
46	chr19:38091000-38093200	Strong transcription	Colon Smooth Muscle	Colon
47	chr19:38091000-38093400	Strong transcription	Primary T helper cells PMA-I stimulated	--
48	chr19:38091000-38094600	Strong transcription	Brain Germinal Matrix	brain
49	chr19:38091200-38093000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr19:38091200-38093400	Weak transcription	Psoas Muscle	Psoas

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