Variant report

Variant	rs9285136
Chromosome Location	chr13:40106413-40106414
allele	G/T
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: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1022808	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1022810	0.83[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1040961	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1570414	0.93[CEU][hapmap]
rs1885758	1.00[CEU][hapmap]
rs1885760	1.00[CEU][hapmap];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	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1885764	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2875329	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3812881	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4325425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4520717	1.00[CEU][hapmap];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	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6563720	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6563721	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6563722	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6563726	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs6563727	1.00[CEU][hapmap]
rs7139592	0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7324883	1.00[CEU][hapmap]
rs7331023	1.00[CEU][hapmap]
rs7333587	0.93[CEU][hapmap];0.91[EUR][1000 genomes]
rs7988729	1.00[CEU][hapmap]
rs7992290	0.85[CHB][hapmap]
rs912050	1.00[CEU][hapmap]
rs9285135	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]
rs9315704	1.00[CEU][hapmap]
rs9315705	1.00[CEU][hapmap]
rs9548796	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9548807	0.85[EUR][1000 genomes]
rs9566448	0.87[CEU][hapmap];0.83[AMR][1000 genomes]
rs9566457	0.93[CEU][hapmap];0.81[EUR][1000 genomes]
rs9576838	0.89[YRI][hapmap]
rs9576865	1.00[CEU][hapmap]
rs978135	1.00[CEU][hapmap];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:40 , 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	chr13:40102800-40107600	Weak transcription	Ovary	ovary
5	chr13:40102800-40107800	Weak transcription	Fetal Brain Male	brain
6	chr13:40102800-40110400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr13:40102800-40110800	Weak transcription	Brain Hippocampus Middle	brain
8	chr13:40102800-40111200	Weak transcription	Brain Cingulate Gyrus	brain
9	chr13:40103000-40109000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr13:40103200-40108400	Weak transcription	Fetal Brain Female	brain
11	chr13:40103200-40110800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr13:40104400-40106600	Enhancers	NHEK	skin
13	chr13:40105000-40106600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr13:40105000-40106600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr13:40105000-40106600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr13:40105000-40106600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr13:40105200-40107200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr13:40105400-40107600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr13:40105600-40106600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr13:40106000-40113200	Weak transcription	Fetal Lung	lung
21	chr13:40106200-40106800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr13:40106200-40109000	Weak transcription	Adipose Nuclei	Adipose
23	chr13:40106200-40109200	Weak transcription	Fetal Heart	heart
24	chr13:40106200-40110400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr13:40106200-40110800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr13:40106200-40113200	Weak transcription	Colon Smooth Muscle	Colon
27	chr13:40106400-40106600	Enhancers	Osteobl	bone
28	chr13:40106400-40106800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr13:40106400-40106800	Enhancers	Muscle Satellite Cultured Cells	--
30	chr13:40106400-40107200	Enhancers	NHDF-Ad	bronchial
31	chr13:40106400-40110200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr13:40106400-40110400	Weak transcription	Left Ventricle	heart
33	chr13:40106400-40110400	Weak transcription	Right Atrium	heart
34	chr13:40106400-40110400	Weak transcription	Right Ventricle	heart
35	chr13:40106400-40110400	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr13:40106400-40110800	Weak transcription	NHLF	lung
37	chr13:40106400-40111400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr13:40106400-40113400	Weak transcription	HSMM	muscle
39	chr13:40106400-40113600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr13:40106400-40116600	Weak transcription	Fetal Muscle Leg	muscle

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