Variant report

Variant	rs55976613
Chromosome Location	chr18:29906245-29906246
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10502591	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10502594	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11081757	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11872811	1.00[EUR][1000 genomes]
rs11874036	1.00[EUR][1000 genomes]
rs11876823	1.00[EUR][1000 genomes]
rs16963314	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs16963353	0.84[ASN][1000 genomes]
rs16963360	0.84[ASN][1000 genomes]
rs16963365	0.84[ASN][1000 genomes]
rs17736440	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17736489	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1841119	1.00[EUR][1000 genomes]
rs3073261	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55730180	0.84[ASN][1000 genomes]
rs55861080	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57230958	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57546420	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58435646	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58863502	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59340191	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59452754	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59630704	0.81[ASN][1000 genomes]
rs60154857	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60214917	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60949633	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73954806	0.84[ASN][1000 genomes]
rs73954807	0.84[ASN][1000 genomes]
rs73956875	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73956877	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73956878	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73956881	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73956882	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73956890	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73956898	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73958413	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs73958418	0.84[ASN][1000 genomes]
rs73958422	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833616	chr18:29792336-29964212	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29868200-29923800	Weak transcription	Gastric	stomach
2	chr18:29891000-29914000	Weak transcription	Fetal Brain Female	brain
3	chr18:29897200-29918800	Weak transcription	Fetal Intestine Large	intestine
4	chr18:29897200-29926400	Weak transcription	Fetal Stomach	stomach
5	chr18:29897400-29909000	Weak transcription	Left Ventricle	heart
6	chr18:29897400-29923800	Weak transcription	Esophagus	oesophagus
7	chr18:29897400-29923800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr18:29898000-29906400	Weak transcription	Small Intestine	intestine
9	chr18:29898000-29906600	Weak transcription	Brain Angular Gyrus	brain
10	chr18:29898000-29918600	Weak transcription	Fetal Intestine Small	intestine
11	chr18:29898200-29915400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr18:29899800-29908400	Weak transcription	Stomach Mucosa	stomach
13	chr18:29902600-29907400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr18:29903400-29915800	Weak transcription	Fetal Brain Male	brain
15	chr18:29903600-29906400	Weak transcription	Psoas Muscle	Psoas
16	chr18:29904200-29913200	Weak transcription	Pancreas	Pancrea
17	chr18:29904200-29913800	Weak transcription	Fetal Muscle Trunk	muscle
18	chr18:29904200-29915200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr18:29904400-29906400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr18:29904400-29906600	Weak transcription	Fetal Muscle Leg	muscle
21	chr18:29904400-29930000	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr18:29904600-29906600	Weak transcription	Fetal Kidney	kidney
23	chr18:29904600-29906600	Weak transcription	Fetal Lung	lung
24	chr18:29904600-29917200	Weak transcription	HMEC	breast
25	chr18:29904800-29906400	Weak transcription	HSMM	muscle
26	chr18:29904800-29906800	Enhancers	Adipose Nuclei	Adipose
27	chr18:29905000-29908800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr18:29905400-29907000	Enhancers	Right Ventricle	heart
29	chr18:29905400-29907000	Enhancers	HSMMtube	muscle
30	chr18:29905400-29907800	Enhancers	Brain Anterior Caudate	brain
31	chr18:29905400-29907800	Enhancers	Brain Cingulate Gyrus	brain
32	chr18:29905400-29908200	Enhancers	Cortex derived primary cultured neurospheres	brain
33	chr18:29905600-29906400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr18:29905600-29906600	Enhancers	Stomach Smooth Muscle	stomach
35	chr18:29905600-29906800	Enhancers	Ovary	ovary
36	chr18:29905600-29907200	Enhancers	HUES48 Cell Line	embryonic stem cell
37	chr18:29905600-29907800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr18:29905600-29907800	Enhancers	Brain Inferior Temporal Lobe	brain
39	chr18:29905600-29907800	Enhancers	Brain Substantia Nigra	brain
40	chr18:29905600-29907800	Enhancers	Rectal Smooth Muscle	rectum
41	chr18:29905800-29906800	Weak transcription	HepG2	liver
42	chr18:29905800-29907000	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr18:29905800-29907200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
44	chr18:29905800-29907600	Enhancers	iPS-20b Cell Line	embryonic stem cell
45	chr18:29905800-29907600	Enhancers	Brain Hippocampus Middle	brain
46	chr18:29905800-29907600	Enhancers	Colon Smooth Muscle	Colon
47	chr18:29905800-29907800	Enhancers	Liver	Liver
48	chr18:29906000-29906400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr18:29906000-29906600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr18:29906000-29906600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links