Variant report

Variant	rs8110143
Chromosome Location	chr19:56909806-56909807
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:6)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:1 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:56902006..56908060-chr19:56909612..56917978,15	K562	blood:

(count:6 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF583-1	chr19:56909646-56910537	ENSG00000245902
2	lnc-ZNF583-1	chr19:56909250-56910541	ENSG00000245902
3	lnc-ZNF583-1	chr19:56909646-56910539	XLOC_013167
4	lnc-ZNF583-1	chr19:56909646-56910539	NONHSAT068133
5	lnc-ZNF583-1	chr19:56909250-56910544	NONHSAT068134
6	lnc-ZNF583-1	chr19:56909646-56909825	NONHSAT068139

No data

Variant related genes	Relation type
ENSG00000266631	Chromatin interaction
ENSG00000267454	Chromatin interaction
ENSG00000018869	Chromatin interaction

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	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10409767	0.81[AFR][1000 genomes]
rs10419992	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59829089	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73621260	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73621264	1.00[AMR][1000 genomes]
rs73621272	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8100609	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8100715	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8109989	1.00[AMR][1000 genomes]
rs8110200	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8111813	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8113261	0.80[AFR][1000 genomes];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:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:56905000-56913600	ZNF genes & repeats	Liver	Liver
2	chr19:56905400-56910800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr19:56905400-56911000	Weak transcription	Stomach Mucosa	stomach
4	chr19:56905600-56910000	Weak transcription	Fetal Brain Male	brain
5	chr19:56905600-56910200	Weak transcription	Fetal Kidney	kidney
6	chr19:56905600-56914600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr19:56905800-56910000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr19:56905800-56914400	Weak transcription	Fetal Heart	heart
9	chr19:56906000-56910200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr19:56906000-56910200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr19:56906000-56910400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr19:56907400-56910200	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr19:56908000-56910400	Strong transcription	Skeletal Muscle Male	skeletal muscle
14	chr19:56908000-56910600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr19:56908000-56913600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr19:56908000-56913600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
17	chr19:56908000-56914800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr19:56908200-56910400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr19:56908200-56911400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr19:56908200-56912400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
21	chr19:56908200-56913000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
22	chr19:56908200-56914600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr19:56908400-56910200	Strong transcription	HSMMtube	muscle
24	chr19:56908400-56911800	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
25	chr19:56908400-56912000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr19:56908400-56912000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
27	chr19:56908400-56913600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr19:56908600-56910000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr19:56908600-56911000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr19:56908600-56911600	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
31	chr19:56908600-56912200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr19:56908600-56913400	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
33	chr19:56908800-56910000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr19:56908800-56910600	Strong transcription	Muscle Satellite Cultured Cells	--
35	chr19:56908800-56911200	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
36	chr19:56908800-56911200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
37	chr19:56908800-56911400	ZNF genes & repeats	Primary T cells from cord blood	blood
38	chr19:56908800-56911600	ZNF genes & repeats	Primary T helper 17 cells PMA-I stimulated	--
39	chr19:56908800-56911600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr19:56908800-56911600	Strong transcription	Brain Cingulate Gyrus	brain
41	chr19:56908800-56911600	Strong transcription	Brain Hippocampus Middle	brain
42	chr19:56908800-56912000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr19:56908800-56912000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr19:56908800-56913600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
45	chr19:56908800-56913600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
46	chr19:56909000-56910000	Strong transcription	Primary T cells fromperipheralblood	blood
47	chr19:56909000-56910600	ZNF genes & repeats	Adipose Nuclei	Adipose
48	chr19:56909000-56910600	ZNF genes & repeats	Lung	lung
49	chr19:56909000-56910800	Strong transcription	H1 Cell Line	embryonic stem cell
50	chr19:56909000-56911000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links