Variant report

Variant	rs6563721
Chromosome Location	chr13:40105674-40105675
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PROSER1-3	chr13:40100016-40107556	NONHSAT033305

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1022808	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1022810	0.99[ASN][1000 genomes]
rs1040961	0.96[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1885760	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1885761	0.99[ASN][1000 genomes]
rs1885762	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1885763	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1885764	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2875329	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3812881	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4325425	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4520717	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4941933	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4941935	0.83[EUR][1000 genomes]
rs4943674	0.84[EUR][1000 genomes]
rs6563719	0.99[ASN][1000 genomes]
rs6563720	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6563722	0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6563726	0.84[EUR][1000 genomes]
rs7139592	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7333587	0.91[EUR][1000 genomes]
rs9285135	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9285136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9315698	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9548796	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9548807	0.85[EUR][1000 genomes]
rs9566448	0.83[AMR][1000 genomes]
rs9566457	0.81[EUR][1000 genomes]
rs978135	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1054600	chr13:39801283-40545027	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1050137	chr13:40090742-40118499	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:40096800-40110400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr13:40099400-40106000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr13:40101600-40110400	Weak transcription	Psoas Muscle	Psoas
4	chr13:40102600-40110600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr13:40102800-40106000	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr13:40102800-40106400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr13:40102800-40107600	Weak transcription	Ovary	ovary
8	chr13:40102800-40107800	Weak transcription	Fetal Brain Male	brain
9	chr13:40102800-40110400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr13:40102800-40110800	Weak transcription	Brain Hippocampus Middle	brain
11	chr13:40102800-40111200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr13:40103000-40105800	Enhancers	NHDF-Ad	bronchial
13	chr13:40103000-40109000	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr13:40103200-40108400	Weak transcription	Fetal Brain Female	brain
15	chr13:40103200-40110800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr13:40104400-40106200	Enhancers	Fetal Heart	heart
17	chr13:40104400-40106400	Enhancers	Right Atrium	heart
18	chr13:40104400-40106600	Enhancers	NHEK	skin
19	chr13:40104600-40105800	Weak transcription	Right Ventricle	heart
20	chr13:40104600-40106000	Enhancers	Osteobl	bone
21	chr13:40104600-40106400	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr13:40104800-40106000	Enhancers	Fetal Lung	lung
23	chr13:40104800-40106000	Enhancers	A549	lung
24	chr13:40104800-40106200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr13:40104800-40106200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr13:40104800-40106200	Enhancers	Adipose Nuclei	Adipose
27	chr13:40104800-40106200	Enhancers	Skeletal Muscle Male	skeletal muscle
28	chr13:40104800-40106200	Enhancers	HSMMtube	muscle
29	chr13:40105000-40105800	Enhancers	Duodenum Smooth Muscle	Duodenum
30	chr13:40105000-40106200	Enhancers	Colon Smooth Muscle	Colon
31	chr13:40105000-40106400	Enhancers	HMEC	breast
32	chr13:40105000-40106400	Enhancers	NHLF	lung
33	chr13:40105000-40106600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr13:40105000-40106600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr13:40105000-40106600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr13:40105000-40106600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr13:40105200-40107200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr13:40105400-40106000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr13:40105400-40106200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr13:40105400-40106400	Enhancers	HSMM	muscle
41	chr13:40105400-40107600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr13:40105600-40106000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
43	chr13:40105600-40106400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr13:40105600-40106400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
45	chr13:40105600-40106400	Enhancers	Fetal Muscle Leg	muscle
46	chr13:40105600-40106400	Enhancers	Left Ventricle	heart
47	chr13:40105600-40106400	Enhancers	NH-A	brain
48	chr13:40105600-40106600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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