Variant report

Variant	rs6877743
Chromosome Location	chr5:58454191-58454192
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10035719	0.83[ASN][1000 genomes]
rs10038299	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10039838	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10085037	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10085076	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1105577	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs1551938	0.82[CHB][hapmap]
rs16889280	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs55730818	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55998224	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72764072	0.83[ASN][1000 genomes]
rs7728050	0.83[CHB][hapmap];0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv881702	chr5:58432413-58474854	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58439000-58484000	Weak transcription	Fetal Kidney	kidney
2	chr5:58447600-58454800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr5:58447600-58464000	Weak transcription	Right Ventricle	heart
4	chr5:58447600-58465200	Weak transcription	Right Atrium	heart
5	chr5:58447600-58473200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr5:58447600-58473400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr5:58447600-58479600	Weak transcription	Left Ventricle	heart
8	chr5:58449000-58456400	Weak transcription	Fetal Intestine Large	intestine
9	chr5:58449200-58454200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr5:58449200-58457000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr5:58449200-58457600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr5:58449400-58473600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr5:58449600-58457000	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr5:58449800-58456400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr5:58449800-58489400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr5:58450000-58460200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr5:58451400-58459600	Weak transcription	Fetal Lung	lung
18	chr5:58451600-58455200	Enhancers	Fetal Muscle Leg	muscle
19	chr5:58452000-58456800	Weak transcription	Fetal Thymus	thymus
20	chr5:58452000-58457000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr5:58452200-58454800	Enhancers	HSMM	muscle
22	chr5:58452200-58455000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr5:58452200-58464000	Weak transcription	Hela-S3	cervix
24	chr5:58452800-58454200	Enhancers	HSMMtube	muscle
25	chr5:58452800-58458200	Genic enhancers	A549	lung
26	chr5:58453000-58455800	Enhancers	Fetal Heart	heart
27	chr5:58453000-58456000	Enhancers	Colon Smooth Muscle	Colon
28	chr5:58453400-58454200	Enhancers	Skeletal Muscle Male	skeletal muscle
29	chr5:58453400-58454800	Enhancers	Placenta Amnion	Placenta Amnion
30	chr5:58453400-58457000	Weak transcription	Primary T cells from cord blood	blood
31	chr5:58453600-58454400	Enhancers	Duodenum Smooth Muscle	Duodenum
32	chr5:58453800-58454200	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr5:58453800-58454200	Enhancers	Small Intestine	intestine
34	chr5:58453800-58454800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr5:58453800-58456000	Enhancers	Pancreatic Islets	Pancreatic Islet
36	chr5:58453800-58456000	Enhancers	Psoas Muscle	Psoas
37	chr5:58454000-58454200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr5:58454000-58454400	Enhancers	Adipose Nuclei	Adipose
39	chr5:58454000-58454400	Enhancers	NHEK	skin
40	chr5:58454000-58455800	Enhancers	Primary neutrophils fromperipheralblood	blood
41	chr5:58454000-58455800	Enhancers	Rectal Smooth Muscle	rectum
42	chr5:58454000-58455800	Enhancers	Skeletal Muscle Female	skeletal muscle
43	chr5:58454000-58459400	Weak transcription	Muscle Satellite Cultured Cells	--

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