Variant report

Variant	rs1842003
Chromosome Location	chr5:115664207-115664208
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10519443	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs1073205	1.00[ASN][1000 genomes]
rs11948686	1.00[ASN][1000 genomes]
rs11956927	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11958276	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs17139198	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs17500032	1.00[ASN][1000 genomes]
rs1842004	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4920909	0.89[ASN][1000 genomes]
rs4920911	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4920912	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4920913	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4920914	1.00[ASN][1000 genomes]
rs4921073	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs4921092	1.00[ASN][1000 genomes]
rs4921093	1.00[ASN][1000 genomes]
rs55817922	1.00[ASN][1000 genomes]
rs57362825	1.00[ASN][1000 genomes]
rs60052990	1.00[ASN][1000 genomes]
rs6594962	1.00[ASN][1000 genomes]
rs6859442	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6860662	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6861340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6874012	1.00[ASN][1000 genomes]
rs6893543	0.89[ASN][1000 genomes]
rs6893952	1.00[ASN][1000 genomes]
rs712590	0.90[ASN][1000 genomes]
rs73261067	0.89[ASN][1000 genomes]
rs73263060	1.00[ASN][1000 genomes]
rs73263082	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73263087	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73264968	1.00[ASN][1000 genomes]
rs7701174	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7734398	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34146	chr5:115315944-115729919	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	esv2755349	chr5:115384101-115733101	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv882746	chr5:115566026-115704566	Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1017983	chr5:115578765-115713688	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv882748	chr5:115584159-115669950	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv869754	chr5:115634234-115696094	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv4968	chr5:115635771-115714856	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent/Poised TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:115634200-115664400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr5:115643200-115664800	Weak transcription	Pancreas	Pancrea
3	chr5:115643200-115669800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr5:115644400-115664800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr5:115644400-115671800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr5:115649000-115692800	Weak transcription	Fetal Heart	heart
7	chr5:115652000-115665000	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr5:115652000-115668000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr5:115653000-115667400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr5:115653400-115664600	Weak transcription	Psoas Muscle	Psoas
11	chr5:115653600-115670400	Weak transcription	Right Ventricle	heart
12	chr5:115654400-115664600	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr5:115654600-115664400	Weak transcription	Fetal Muscle Trunk	muscle
14	chr5:115654600-115664400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr5:115654600-115664800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr5:115654600-115665000	Weak transcription	Rectal Smooth Muscle	rectum
17	chr5:115654600-115669600	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr5:115655200-115664400	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr5:115655400-115664400	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr5:115655400-115669800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr5:115656400-115666400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr5:115657000-115664400	Weak transcription	Adipose Nuclei	Adipose
23	chr5:115657000-115665000	Weak transcription	Liver	Liver
24	chr5:115658800-115664800	Weak transcription	Ovary	ovary
25	chr5:115659200-115664600	Weak transcription	Brain Hippocampus Middle	brain
26	chr5:115659200-115665000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr5:115659200-115669600	Weak transcription	Fetal Kidney	kidney
28	chr5:115660800-115664600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr5:115661200-115664800	Weak transcription	Left Ventricle	heart
30	chr5:115663200-115671000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr5:115663800-115664800	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
32	chr5:115663800-115665400	ZNF genes & repeats	Lung	lung
33	chr5:115663800-115665800	Strong transcription	Primary T cells from cord blood	blood
34	chr5:115663800-115666000	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr5:115663800-115666400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr5:115663800-115666800	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
37	chr5:115663800-115667000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr5:115664000-115664400	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr5:115664000-115666200	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
40	chr5:115664200-115664800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr5:115664200-115664800	ZNF genes & repeats	Fetal Muscle Leg	muscle
42	chr5:115664200-115664800	Strong transcription	Thymus	Thymus
43	chr5:115664200-115665000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
44	chr5:115664200-115665600	ZNF genes & repeats	Dnd41	blood
45	chr5:115664200-115666400	ZNF genes & repeats	Primary B cells from cord blood	blood

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