Variant report

Variant	rs55902900
Chromosome Location	chr13:49951083-49951084
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs59845889	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60500875	1.00[ASN][1000 genomes]
rs73485494	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74072538	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9783555	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900069	chr13:49815405-49976393	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1047311	chr13:49895019-50224227	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv430558	chr13:49914393-50059354	Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv430559	chr13:49930369-50059354	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv430560	chr13:49930643-50059354	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv430562	chr13:49930643-50067246	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv430561	chr13:49930643-50089844	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
8	nsv430564	chr13:49945247-50059354	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
9	nsv430566	chr13:49945247-50089844	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
10	esv997002	chr13:49948395-49955191	Enhancers Weak transcription Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv435647	chr13:49950336-49954285	Weak transcription Enhancers Strong transcription Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	esv3415884	chr13:49950701-49954799	Weak transcription Strong transcription Enhancers Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	esv2539030	chr13:49950753-49954493	Weak transcription Enhancers Strong transcription Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	esv3528048	chr13:49950966-49954342	Weak transcription Enhancers Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	esv3325474	chr13:49950973-49954189	Weak transcription Enhancers Strong transcription Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:49922800-49951400	Weak transcription	Gastric	stomach
2	chr13:49923200-49951200	Weak transcription	Pancreas	Pancrea
3	chr13:49934200-49957400	Weak transcription	Left Ventricle	heart
4	chr13:49938600-49961000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr13:49942800-49952800	Weak transcription	Aorta	Aorta
6	chr13:49944400-49951400	Enhancers	Fetal Heart	heart
7	chr13:49945000-49952000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr13:49945200-49973000	Weak transcription	Brain Substantia Nigra	brain
9	chr13:49946800-49961400	Weak transcription	Brain Hippocampus Middle	brain
10	chr13:49946800-49961400	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr13:49946800-49962600	Weak transcription	Stomach Smooth Muscle	stomach
12	chr13:49946800-49964000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr13:49947000-49952200	Weak transcription	Fetal Stomach	stomach
14	chr13:49948000-49952800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr13:49948200-49951200	Weak transcription	Stomach Mucosa	stomach
16	chr13:49948200-49961000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr13:49948200-49961200	Weak transcription	Brain Angular Gyrus	brain
18	chr13:49948200-49961600	Weak transcription	Ovary	ovary
19	chr13:49948600-49953000	Weak transcription	Liver	Liver
20	chr13:49949000-49951400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr13:49949000-49951400	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr13:49949000-49960800	Weak transcription	Right Atrium	heart
23	chr13:49949200-49951600	Weak transcription	Fetal Brain Female	brain
24	chr13:49949200-49961000	Weak transcription	Colon Smooth Muscle	Colon
25	chr13:49949200-49961200	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr13:49949200-49971200	Weak transcription	Rectal Smooth Muscle	rectum
27	chr13:49949400-49959600	Weak transcription	NHDF-Ad	bronchial
28	chr13:49949600-49951400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr13:49949600-49954400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr13:49949600-49958800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr13:49949800-49951200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr13:49949800-49951200	Enhancers	NHEK	skin
33	chr13:49950000-49951200	Strong transcription	Adipose Nuclei	Adipose
34	chr13:49950200-49951400	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr13:49950400-49951200	Strong transcription	Brain Anterior Caudate	brain
36	chr13:49950800-49951200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr13:49950800-49961600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr13:49951000-49951200	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell

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