Variant report

Variant	rs9576836
Chromosome Location	chr13:40104755-40104756
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: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1002461	1.00[EUR][1000 genomes]
rs17060174	0.88[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17060332	1.00[EUR][1000 genomes]
rs73466901	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9315699	1.00[ASN][1000 genomes]
rs9566449	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9566450	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9566453	1.00[ASN][1000 genomes]
rs9566454	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576829	0.88[CHB][hapmap];1.00[EUR][1000 genomes]
rs9576830	1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs9576831	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9576832	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9576833	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9576834	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9576835	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576837	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576840	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576841	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9576842	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576843	0.88[CHB][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576854	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9576861	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9576862	1.00[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:51 , 50 per page) page: 1 2

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	chr13:40101600-40105000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr13:40101600-40110400	Weak transcription	Psoas Muscle	Psoas
5	chr13:40102600-40105000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr13:40102600-40110600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr13:40102800-40104800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr13:40102800-40104800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr13:40102800-40104800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr13:40102800-40105000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr13:40102800-40105000	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr13:40102800-40105000	Weak transcription	Colon Smooth Muscle	Colon
13	chr13:40102800-40105000	Weak transcription	Stomach Smooth Muscle	stomach
14	chr13:40102800-40106000	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr13:40102800-40106400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr13:40102800-40107600	Weak transcription	Ovary	ovary
17	chr13:40102800-40107800	Weak transcription	Fetal Brain Male	brain
18	chr13:40102800-40110400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr13:40102800-40110800	Weak transcription	Brain Hippocampus Middle	brain
20	chr13:40102800-40111200	Weak transcription	Brain Cingulate Gyrus	brain
21	chr13:40103000-40105000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr13:40103000-40105800	Enhancers	NHDF-Ad	bronchial
23	chr13:40103000-40109000	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr13:40103200-40104800	Weak transcription	Adipose Nuclei	Adipose
25	chr13:40103200-40104800	Weak transcription	A549	lung
26	chr13:40103200-40104800	Weak transcription	HSMMtube	muscle
27	chr13:40103200-40105000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr13:40103200-40105000	Weak transcription	Brain Substantia Nigra	brain
29	chr13:40103200-40105000	Weak transcription	HMEC	breast
30	chr13:40103200-40105200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr13:40103200-40105600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr13:40103200-40108400	Weak transcription	Fetal Brain Female	brain
33	chr13:40103200-40110800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr13:40103400-40104800	Weak transcription	Fetal Lung	lung
35	chr13:40103400-40105000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr13:40103400-40105000	Weak transcription	NHLF	lung
37	chr13:40103400-40105400	Weak transcription	HSMM	muscle
38	chr13:40103400-40105600	Weak transcription	Fetal Muscle Leg	muscle
39	chr13:40103600-40104800	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr13:40103600-40104800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr13:40104000-40105600	Weak transcription	NH-A	brain
42	chr13:40104200-40105400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr13:40104400-40104800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr13:40104400-40105000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr13:40104400-40106200	Enhancers	Fetal Heart	heart
46	chr13:40104400-40106400	Enhancers	Right Atrium	heart
47	chr13:40104400-40106600	Enhancers	NHEK	skin
48	chr13:40104600-40105600	Weak transcription	Left Ventricle	heart
49	chr13:40104600-40105800	Weak transcription	Right Ventricle	heart
50	chr13:40104600-40106000	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links