Variant report

Variant	rs13335010
Chromosome Location	chr16:48089313-48089314
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs11861448	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs11864016	1.00[EUR][1000 genomes]
rs11864570	1.00[EUR][1000 genomes]
rs12103132	1.00[EUR][1000 genomes]
rs13330281	1.00[EUR][1000 genomes]
rs13330882	1.00[EUR][1000 genomes]
rs13331266	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs13333718	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13334423	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs13334475	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1345425	1.00[EUR][1000 genomes]
rs16945786	1.00[EUR][1000 genomes]
rs16945813	1.00[EUR][1000 genomes]
rs16945816	1.00[EUR][1000 genomes]
rs16945819	1.00[EUR][1000 genomes]
rs16945824	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs16945828	1.00[EUR][1000 genomes]
rs16945831	1.00[EUR][1000 genomes]
rs16945835	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs16945839	1.00[EUR][1000 genomes]
rs16945860	1.00[EUR][1000 genomes]
rs2016940	1.00[EUR][1000 genomes]
rs28431782	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28526661	1.00[EUR][1000 genomes]
rs28531369	1.00[EUR][1000 genomes]
rs28587611	1.00[EUR][1000 genomes]
rs28592871	1.00[EUR][1000 genomes]
rs28669266	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34106426	1.00[EUR][1000 genomes]
rs4785405	1.00[EUR][1000 genomes]
rs4785406	1.00[MEX][hapmap]
rs56093600	1.00[EUR][1000 genomes]
rs57124014	1.00[EUR][1000 genomes]
rs57432729	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57740199	1.00[EUR][1000 genomes]
rs58204235	1.00[EUR][1000 genomes]
rs58622309	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59311846	1.00[EUR][1000 genomes]
rs59312258	1.00[EUR][1000 genomes]
rs59466391	1.00[EUR][1000 genomes]
rs59528776	1.00[EUR][1000 genomes]
rs59766379	1.00[EUR][1000 genomes]
rs59832329	1.00[EUR][1000 genomes]
rs59966196	1.00[EUR][1000 genomes]
rs6500304	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs6500305	1.00[EUR][1000 genomes]
rs7187069	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7197701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7203314	1.00[EUR][1000 genomes]
rs73540833	1.00[EUR][1000 genomes]
rs73540845	1.00[EUR][1000 genomes]
rs73540853	1.00[EUR][1000 genomes]
rs74018249	1.00[EUR][1000 genomes]
rs74018255	1.00[EUR][1000 genomes]
rs8046592	1.00[EUR][1000 genomes]
rs8048367	1.00[EUR][1000 genomes]
rs8056553	1.00[EUR][1000 genomes]
rs8058288	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9302750	1.00[EUR][1000 genomes]
rs939360	1.00[EUR][1000 genomes]
rs939362	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs961668	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs9925287	1.00[MEX][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9926338	1.00[EUR][1000 genomes]
rs9933094	1.00[EUR][1000 genomes]
rs9933277	1.00[EUR][1000 genomes]
rs9935027	1.00[EUR][1000 genomes]
rs9936500	1.00[EUR][1000 genomes]
rs9936532	1.00[EUR][1000 genomes]
rs9938810	1.00[EUR][1000 genomes]
rs9940987	1.00[MEX][hapmap];1.00[EUR][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	nsv520355	chr16:47424828-48164777	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 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	chr16:48083600-48089600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr16:48086000-48089400	Enhancers	Ovary	ovary
3	chr16:48086600-48089400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr16:48087200-48090000	Enhancers	A549	lung
5	chr16:48087400-48089600	Enhancers	NHDF-Ad	bronchial
6	chr16:48087800-48089400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr16:48088400-48089400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr16:48088400-48091000	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr16:48088600-48089400	Enhancers	H1 Cell Line	embryonic stem cell
10	chr16:48088600-48089400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr16:48088600-48089400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr16:48088600-48089400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr16:48088600-48089400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr16:48088600-48089400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr16:48088600-48089400	Active TSS	Brain Angular Gyrus	brain
16	chr16:48088600-48089400	Flanking Active TSS	Brain Germinal Matrix	brain
17	chr16:48088600-48089400	Flanking Active TSS	Fetal Brain Female	brain
18	chr16:48088600-48089400	Enhancers	Placenta	Placenta
19	chr16:48088600-48089400	Enhancers	Psoas Muscle	Psoas
20	chr16:48088600-48089400	Enhancers	HMEC	breast
21	chr16:48088800-48089400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr16:48088800-48089400	Active TSS	HUES6 Cell Line	embryonic stem cell
23	chr16:48088800-48089400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr16:48088800-48089400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr16:48088800-48089400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr16:48088800-48089400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr16:48088800-48089400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr16:48088800-48089400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr16:48088800-48089400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr16:48088800-48089400	Enhancers	Fetal Heart	heart
31	chr16:48088800-48089400	Enhancers	Fetal Lung	lung
32	chr16:48088800-48089400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
33	chr16:48088800-48089400	Bivalent Enhancer	Fetal Stomach	stomach
34	chr16:48088800-48089400	Enhancers	Pancreas	Pancrea
35	chr16:48088800-48089400	Flanking Active TSS	Osteobl	bone
36	chr16:48088800-48089600	Active TSS	Brain Inferior Temporal Lobe	brain
37	chr16:48088800-48089600	Enhancers	NHEK	skin
38	chr16:48088800-48089800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr16:48088800-48089800	Enhancers	Spleen	Spleen
40	chr16:48089000-48089400	Active TSS	HUES64 Cell Line	embryonic stem cell
41	chr16:48089000-48089400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr16:48089000-48089400	Active TSS	iPS-20b Cell Line	embryonic stem cell
43	chr16:48089000-48089400	Enhancers	Breast Myoepithelial Primary Cells	Breast
44	chr16:48089000-48089400	Enhancers	Primary B cells from peripheral blood	blood
45	chr16:48089000-48089400	Active TSS	Brain Cingulate Gyrus	brain
46	chr16:48089000-48089400	Active TSS	GM12878-XiMat	blood
47	chr16:48089000-48089400	Bivalent Enhancer	HepG2	liver
48	chr16:48089000-48091000	Enhancers	Fetal Brain Male	brain
49	chr16:48089200-48089400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
50	chr16:48089200-48089400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links