Variant report

Variant	rs57062804
Chromosome Location	chr17:16461375-16461376
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF624-1	chr17:16461299-16461676	ENSG00000266803.1

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

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1006561	1.00[EUR][1000 genomes]
rs16959784	1.00[EUR][1000 genomes]
rs16959820	0.86[AFR][1000 genomes]
rs16959828	0.85[AFR][1000 genomes]
rs16959831	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16959832	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16959849	1.00[EUR][1000 genomes]
rs28375510	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28375681	1.00[EUR][1000 genomes]
rs28481713	1.00[EUR][1000 genomes]
rs28482815	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57088651	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57432974	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6502511	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6502512	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7211497	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7212777	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7213263	0.84[AFR][1000 genomes]
rs7214389	1.00[EUR][1000 genomes]
rs7218171	1.00[EUR][1000 genomes]
rs7218177	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7220797	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7220867	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7221073	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7222107	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73282666	1.00[EUR][1000 genomes]
rs73282673	1.00[EUR][1000 genomes]
rs73282675	1.00[EUR][1000 genomes]
rs73282678	1.00[EUR][1000 genomes]
rs73980200	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8066377	1.00[EUR][1000 genomes]
rs8068846	1.00[EUR][1000 genomes]
rs8069772	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8069951	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9890785	1.00[EUR][1000 genomes]
rs9899370	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9900136	1.00[EUR][1000 genomes]
rs9900601	1.00[EUR][1000 genomes]
rs9902632	1.00[EUR][1000 genomes]
rs9912467	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9912759	1.00[EUR][1000 genomes]
rs9916250	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv934185	chr17:15552960-16551197	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	190 gene(s)	inside rSNPs	diseases
2	esv3330182	chr17:15652014-16569534	Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
3	esv3446844	chr17:15654843-16572246	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
4	nsv1063459	chr17:15804228-16543593	Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	164 gene(s)	inside rSNPs	diseases
5	nsv1063764	chr17:16171649-16662914	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	120 gene(s)	inside rSNPs	diseases
6	nsv1061463	chr17:16245878-16490691	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	99 gene(s)	inside rSNPs	diseases
7	nsv543216	chr17:16245878-16490691	Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	99 gene(s)	inside rSNPs	diseases
8	nsv1058448	chr17:16389870-16926287	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 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	chr17:16447400-16463200	ZNF genes & repeats	Liver	Liver
2	chr17:16451200-16463200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr17:16452800-16463200	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr17:16452800-16463200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
5	chr17:16453600-16463200	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
6	chr17:16453800-16462200	ZNF genes & repeats	Primary B cells from cord blood	blood
7	chr17:16454400-16463200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr17:16454600-16463200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr17:16454600-16467600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr17:16454800-16461600	ZNF genes & repeats	Primary T cells from cord blood	blood
11	chr17:16454800-16461600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
12	chr17:16454800-16467600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
13	chr17:16455000-16463400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr17:16455000-16471200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr17:16455200-16461600	ZNF genes & repeats	Stomach Smooth Muscle	stomach
16	chr17:16455200-16462200	ZNF genes & repeats	Osteobl	bone
17	chr17:16455200-16463200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr17:16455200-16463200	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr17:16455200-16463200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
20	chr17:16455200-16463200	ZNF genes & repeats	Left Ventricle	heart
21	chr17:16455400-16463200	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
22	chr17:16455400-16463200	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
23	chr17:16455400-16463400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr17:16455400-16468600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr17:16455600-16461800	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
26	chr17:16455600-16463200	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
27	chr17:16455600-16463200	ZNF genes & repeats	Ovary	ovary
28	chr17:16455600-16463200	ZNF genes & repeats	A549	lung
29	chr17:16455600-16463200	ZNF genes & repeats	Dnd41	blood
30	chr17:16455600-16463200	ZNF genes & repeats	NHDF-Ad	bronchial
31	chr17:16455800-16463200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
32	chr17:16456000-16462200	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
33	chr17:16456400-16466600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr17:16456400-16467800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr17:16457200-16463000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr17:16458200-16463200	Strong transcription	Rectal Smooth Muscle	rectum
37	chr17:16458800-16471600	Weak transcription	HUVEC	blood vessel
38	chr17:16459000-16461800	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr17:16459000-16466200	Weak transcription	Colonic Mucosa	Colon
40	chr17:16459200-16462000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr17:16459200-16463200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr17:16459200-16463200	Strong transcription	Skeletal Muscle Female	skeletal muscle
43	chr17:16459200-16467600	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr17:16459600-16463200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr17:16459600-16471800	Weak transcription	Stomach Mucosa	stomach
46	chr17:16459800-16462600	Strong transcription	Fetal Muscle Trunk	muscle
47	chr17:16459800-16467400	Strong transcription	Brain Germinal Matrix	brain
48	chr17:16460000-16461800	Strong transcription	Fetal Brain Female	brain
49	chr17:16460000-16462400	ZNF genes & repeats	Fetal Intestine Large	intestine
50	chr17:16460000-16462600	Strong transcription	Right Ventricle	heart

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