Variant report

Variant	rs62122961
Chromosome Location	chr19:57006721-57006722
allele	C/G
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:5)
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	chr19:57002795..57005630-chr19:57006374..57008169,2	MCF-7	breast:

(count:5 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AC004696.1-1	chr19:57005532-57006805	NONHSAT068156
2	lnc-AC004696.1-1	chr19:57006417-57006804	ENSG00000166770.6
3	lnc-AC004696.1-1	chr19:57006416-57006801	ENSG00000166770.6
4	lnc-AC004696.1-1	chr19:57005532-57006801	ENSG00000166770.6
5	lnc-AC004696.1-1	chr19:57005532-57006805	NONHSAT068157

No data

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs60141587	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62121652	0.84[EUR][1000 genomes]
rs62121654	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	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
6	nsv580385	chr19:56918598-57072433	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	nsv1057240	chr19:56919831-57153659	Flanking Active TSS Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
8	nsv544097	chr19:56919831-57153659	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
9	nsv580386	chr19:56924761-57072433	Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
10	nsv1055357	chr19:56933632-57190007	ZNF genes & repeats Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
11	nsv912518	chr19:56995737-57109821	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62122961	ZFP28	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:56990800-57010000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr19:56991200-57006800	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr19:56991200-57006800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr19:56992000-57009400	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
5	chr19:56992000-57009800	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
6	chr19:56998600-57008800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
7	chr19:57002800-57006800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr19:57003000-57018800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr19:57003200-57018400	Weak transcription	Osteobl	bone
10	chr19:57003600-57006800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr19:57003600-57017000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr19:57003800-57006800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr19:57003800-57011600	Weak transcription	Fetal Heart	heart
14	chr19:57004400-57006800	Weak transcription	Fetal Brain Male	brain
15	chr19:57004400-57008800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
16	chr19:57004600-57009400	ZNF genes & repeats	Ovary	ovary
17	chr19:57004600-57009600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr19:57004800-57007800	Strong transcription	Fetal Muscle Trunk	muscle
19	chr19:57004800-57007800	Strong transcription	Right Ventricle	heart
20	chr19:57005000-57006800	Weak transcription	Fetal Intestine Large	intestine
21	chr19:57005000-57007000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr19:57005200-57008000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr19:57005400-57006800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr19:57005400-57006800	Weak transcription	Brain Cingulate Gyrus	brain
25	chr19:57005400-57007200	Strong transcription	Fetal Muscle Leg	muscle
26	chr19:57005400-57007600	Strong transcription	H1 Cell Line	embryonic stem cell
27	chr19:57005400-57007800	ZNF genes & repeats	Adipose Nuclei	Adipose
28	chr19:57005400-57007800	Strong transcription	Left Ventricle	heart
29	chr19:57005400-57008400	Strong transcription	Skeletal Muscle Male	skeletal muscle
30	chr19:57005400-57008400	ZNF genes & repeats	Spleen	Spleen
31	chr19:57005400-57008600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr19:57005400-57009000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr19:57005400-57009200	ZNF genes & repeats	Aorta	Aorta
34	chr19:57005400-57010000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr19:57005600-57006800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr19:57005600-57006800	Strong transcription	Brain Hippocampus Middle	brain
37	chr19:57005600-57007000	Weak transcription	Pancreas	Pancrea
38	chr19:57005600-57007000	Strong transcription	HSMM	muscle
39	chr19:57005600-57007200	Strong transcription	HSMMtube	muscle
40	chr19:57005600-57007400	Strong transcription	Stomach Smooth Muscle	stomach
41	chr19:57005600-57008000	ZNF genes & repeats	Fetal Lung	lung
42	chr19:57005600-57009600	Strong transcription	Brain Anterior Caudate	brain
43	chr19:57005800-57006800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr19:57005800-57006800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr19:57005800-57006800	Weak transcription	Fetal Stomach	stomach
46	chr19:57005800-57006800	Weak transcription	Gastric	stomach
47	chr19:57005800-57007000	Weak transcription	Primary T cells from cord blood	blood
48	chr19:57005800-57007000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr19:57005800-57007000	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr19:57005800-57007800	Strong transcription	Brain Germinal Matrix	brain

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