Variant report

Variant	rs9576838
Chromosome Location	chr13:40106068-40106069
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: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1040961	0.91[YRI][hapmap]
rs1927205	0.81[CHB][hapmap]
rs1927208	0.81[CHB][hapmap]
rs1927209	0.81[CHB][hapmap];0.85[GIH][hapmap]
rs2875329	0.91[YRI][hapmap]
rs6563722	0.83[ASW][hapmap];0.91[YRI][hapmap]
rs7317222	0.81[YRI][hapmap]
rs9285136	0.89[YRI][hapmap]
rs9532389	0.80[ASN][1000 genomes]
rs9532390	0.80[ASN][1000 genomes]
rs9548789	0.81[CHB][hapmap];0.85[GIH][hapmap]
rs9548791	0.81[CHB][hapmap];0.85[GIH][hapmap]
rs9548792	0.85[CHB][hapmap];0.82[ASN][1000 genomes]
rs9566451	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][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:45 , 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	chr13:40101600-40110400	Weak transcription	Psoas Muscle	Psoas
3	chr13:40102600-40110600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr13:40102800-40106400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr13:40102800-40107600	Weak transcription	Ovary	ovary
6	chr13:40102800-40107800	Weak transcription	Fetal Brain Male	brain
7	chr13:40102800-40110400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr13:40102800-40110800	Weak transcription	Brain Hippocampus Middle	brain
9	chr13:40102800-40111200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr13:40103000-40109000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr13:40103200-40108400	Weak transcription	Fetal Brain Female	brain
12	chr13:40103200-40110800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr13:40104400-40106200	Enhancers	Fetal Heart	heart
14	chr13:40104400-40106400	Enhancers	Right Atrium	heart
15	chr13:40104400-40106600	Enhancers	NHEK	skin
16	chr13:40104600-40106400	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr13:40104800-40106200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr13:40104800-40106200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr13:40104800-40106200	Enhancers	Adipose Nuclei	Adipose
20	chr13:40104800-40106200	Enhancers	Skeletal Muscle Male	skeletal muscle
21	chr13:40104800-40106200	Enhancers	HSMMtube	muscle
22	chr13:40105000-40106200	Enhancers	Colon Smooth Muscle	Colon
23	chr13:40105000-40106400	Enhancers	HMEC	breast
24	chr13:40105000-40106400	Enhancers	NHLF	lung
25	chr13:40105000-40106600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr13:40105000-40106600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr13:40105000-40106600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr13:40105000-40106600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr13:40105200-40107200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr13:40105400-40106200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr13:40105400-40106400	Enhancers	HSMM	muscle
32	chr13:40105400-40107600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr13:40105600-40106400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr13:40105600-40106400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
35	chr13:40105600-40106400	Enhancers	Fetal Muscle Leg	muscle
36	chr13:40105600-40106400	Enhancers	Left Ventricle	heart
37	chr13:40105600-40106400	Enhancers	NH-A	brain
38	chr13:40105600-40106600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr13:40105800-40106400	Enhancers	Right Ventricle	heart
40	chr13:40105800-40106400	Flanking Active TSS	NHDF-Ad	bronchial
41	chr13:40106000-40106400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr13:40106000-40106400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr13:40106000-40106400	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr13:40106000-40106400	Flanking Active TSS	Osteobl	bone
45	chr13:40106000-40113200	Weak transcription	Fetal Lung	lung

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