Variant report

Variant	rs2061355
Chromosome Location	chr19:52957492-52957493
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF534-1	chr19:52956835-52962089	NONHSAT067555

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs12461522	1.00[ASN][1000 genomes]
rs12462080	1.00[ASN][1000 genomes]
rs12971372	1.00[ASN][1000 genomes]
rs12977988	1.00[ASN][1000 genomes]
rs12985487	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12986137	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs16983943	1.00[ASN][1000 genomes]
rs28570374	1.00[ASN][1000 genomes]
rs329948	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs329949	1.00[ASN][1000 genomes]
rs34106830	1.00[ASN][1000 genomes]
rs34203482	1.00[ASN][1000 genomes]
rs34316627	1.00[ASN][1000 genomes]
rs34529833	1.00[ASN][1000 genomes]
rs34724169	1.00[ASN][1000 genomes]
rs34747259	1.00[ASN][1000 genomes]
rs34942135	1.00[ASN][1000 genomes]
rs35356792	1.00[ASN][1000 genomes]
rs35591322	1.00[ASN][1000 genomes]
rs35888888	1.00[ASN][1000 genomes]
rs35895760	1.00[ASN][1000 genomes]
rs35904532	1.00[ASN][1000 genomes]
rs36089907	1.00[ASN][1000 genomes]
rs382838	1.00[ASN][1000 genomes]
rs436426	1.00[ASN][1000 genomes]
rs4401146	1.00[CHB][hapmap]
rs557496	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs58067500	1.00[ASN][1000 genomes]
rs71358875	1.00[ASN][1000 genomes]
rs71358876	1.00[ASN][1000 genomes]
rs71358877	1.00[ASN][1000 genomes]
rs71358878	1.00[ASN][1000 genomes]
rs71358879	1.00[ASN][1000 genomes]
rs71358884	1.00[ASN][1000 genomes]
rs717321	1.00[CHB][hapmap]
rs7252479	1.00[ASN][1000 genomes]
rs7257824	1.00[ASN][1000 genomes]
rs73578236	1.00[ASN][1000 genomes]
rs73578252	1.00[ASN][1000 genomes]
rs73934406	1.00[ASN][1000 genomes]
rs73934407	1.00[ASN][1000 genomes]
rs8104197	1.00[ASN][1000 genomes]
rs811920	1.00[CHB][hapmap];1.00[ASN][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	nsv1066537	chr19:52794424-53044977	Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv544060	chr19:52794424-53044977	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	esv2762048	chr19:52895166-52997571	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv580026	chr19:52937100-53059872	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1063648	chr19:52938131-53041119	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv3415774	chr19:52938189-52970794	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1057296	chr19:52950339-53396986	Weak transcription Active TSS ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:52954000-52961600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
2	chr19:52954400-52961400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
3	chr19:52954400-52962600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
4	chr19:52955600-52957800	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
5	chr19:52955800-52957800	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
6	chr19:52955800-52958200	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
7	chr19:52955800-52961400	ZNF genes & repeats	Fetal Intestine Small	intestine
8	chr19:52956000-52957600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr19:52956000-52958000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
10	chr19:52956000-52969600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr19:52956000-52986200	ZNF genes & repeats	Liver	Liver
12	chr19:52956200-52957600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr19:52956200-52957600	Active TSS	Fetal Kidney	kidney
14	chr19:52956200-52957600	ZNF genes & repeats	NHEK	skin
15	chr19:52956200-52957800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr19:52956200-52958000	Active TSS	NHDF-Ad	bronchial
17	chr19:52956200-52958200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
18	chr19:52956200-52958400	ZNF genes & repeats	Brain Dorsolateral Prefrontal Cortex	brain
19	chr19:52956200-52958400	Active TSS	Psoas Muscle	Psoas
20	chr19:52956200-52961400	ZNF genes & repeats	Primary B cells from peripheral blood	blood
21	chr19:52956200-52961400	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
22	chr19:52956200-52961600	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr19:52956200-52962800	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
24	chr19:52956400-52957600	Active TSS	ES-I3 Cell Line	embryonic stem cell
25	chr19:52956400-52957600	ZNF genes & repeats	Gastric	stomach
26	chr19:52956400-52957600	ZNF genes & repeats	Lung	lung
27	chr19:52956400-52957600	Active TSS	Rectal Mucosa Donor 29	rectum
28	chr19:52956400-52957600	ZNF genes & repeats	Stomach Mucosa	stomach
29	chr19:52956400-52957800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr19:52956400-52957800	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
31	chr19:52956400-52957800	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
32	chr19:52956400-52957800	Active TSS	Rectal Mucosa Donor 31	rectum
33	chr19:52956400-52957800	ZNF genes & repeats	HMEC	breast
34	chr19:52956400-52957800	ZNF genes & repeats	HSMMtube	muscle
35	chr19:52956400-52957800	Active TSS	NHLF	lung
36	chr19:52956400-52957800	Active TSS	Osteobl	bone
37	chr19:52956400-52958000	Active TSS	Brain Hippocampus Middle	brain
38	chr19:52956400-52961200	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
39	chr19:52956400-52961400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
40	chr19:52956400-52961400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr19:52956400-52961400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
42	chr19:52956400-52961600	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
43	chr19:52956400-52963800	ZNF genes & repeats	Primary B cells from cord blood	blood
44	chr19:52956600-52957600	Active TSS	Aorta	Aorta
45	chr19:52956600-52957600	ZNF genes & repeats	Colonic Mucosa	Colon
46	chr19:52956600-52957600	ZNF genes & repeats	Esophagus	oesophagus
47	chr19:52956600-52957600	Active TSS	Fetal Lung	lung
48	chr19:52956600-52957800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr19:52956600-52958200	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
50	chr19:52956600-52958200	Active TSS	Rectal Smooth Muscle	rectum

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