Variant report

Variant	rs10419992
Chromosome Location	chr19:56908970-56908971
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF583-1	chr19:56908633-56909752	NONHSAT147062

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10401365	1.00[AMR][1000 genomes]
rs10408970	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10409767	0.91[AFR][1000 genomes]
rs59829089	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73621260	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73621264	1.00[AMR][1000 genomes]
rs73621272	1.00[AMR][1000 genomes]
rs8100609	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8100715	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8109989	1.00[AMR][1000 genomes]
rs8110143	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8110200	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8111813	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8113261	0.83[AMR][1000 genomes]
rs8113288	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv912516	chr19:56601298-56981382	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	93 gene(s)	inside rSNPs	diseases
2	nsv949121	chr19:56754719-57591038	ZNF genes & repeats Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
3	nsv1062341	chr19:56794070-57273332	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
4	nsv544094	chr19:56794070-57273332	Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
5	nsv1056713	chr19:56799151-57265682	ZNF genes & repeats Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
6	nsv544095	chr19:56799151-57265682	Strong transcription ZNF genes & repeats Active TSS Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
7	nsv544096	chr19:56905651-56933455	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:56905000-56913600	ZNF genes & repeats	Liver	Liver
2	chr19:56905400-56909000	Weak transcription	Spleen	Spleen
3	chr19:56905400-56909200	Weak transcription	Ovary	ovary
4	chr19:56905400-56909400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr19:56905400-56910800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr19:56905400-56911000	Weak transcription	Stomach Mucosa	stomach
7	chr19:56905600-56909200	Weak transcription	Aorta	Aorta
8	chr19:56905600-56909400	Weak transcription	Brain Germinal Matrix	brain
9	chr19:56905600-56909400	Weak transcription	Brain Substantia Nigra	brain
10	chr19:56905600-56909400	Weak transcription	Fetal Brain Female	brain
11	chr19:56905600-56910000	Weak transcription	Fetal Brain Male	brain
12	chr19:56905600-56910200	Weak transcription	Fetal Kidney	kidney
13	chr19:56905600-56914600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr19:56905800-56909000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr19:56905800-56909000	Weak transcription	Fetal Muscle Trunk	muscle
16	chr19:56905800-56909000	Weak transcription	Fetal Muscle Leg	muscle
17	chr19:56905800-56909000	Weak transcription	Fetal Stomach	stomach
18	chr19:56905800-56909000	Weak transcription	Left Ventricle	heart
19	chr19:56905800-56909200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr19:56905800-56909200	Weak transcription	Colon Smooth Muscle	Colon
21	chr19:56905800-56909200	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr19:56905800-56909200	Weak transcription	Fetal Lung	lung
23	chr19:56905800-56910000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr19:56905800-56914400	Weak transcription	Fetal Heart	heart
25	chr19:56906000-56909400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr19:56906000-56909400	Weak transcription	Right Ventricle	heart
27	chr19:56906000-56910200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr19:56906000-56910200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr19:56906000-56910400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr19:56906200-56909000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr19:56906200-56909200	Weak transcription	Brain Anterior Caudate	brain
32	chr19:56906200-56909400	Weak transcription	Brain Angular Gyrus	brain
33	chr19:56906200-56909400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr19:56906600-56909000	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr19:56907400-56910200	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr19:56907600-56909000	Weak transcription	Primary T cells fromperipheralblood	blood
37	chr19:56907600-56909200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr19:56907800-56909200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr19:56908000-56909200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr19:56908000-56909600	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr19:56908000-56910400	Strong transcription	Skeletal Muscle Male	skeletal muscle
42	chr19:56908000-56910600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr19:56908000-56913600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr19:56908000-56913600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
45	chr19:56908000-56914800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr19:56908200-56909200	Weak transcription	Psoas Muscle	Psoas
47	chr19:56908200-56910400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr19:56908200-56911400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr19:56908200-56912400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
50	chr19:56908200-56913000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell

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