Variant report

Variant	rs3099361
Chromosome Location	chr13:96503811-96503812
allele	C/T
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:9)

rs_ID	r²[population]
rs1707244	0.89[ASW][hapmap]
rs2389568	0.80[AFR][1000 genomes]
rs3087337	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap]
rs3125434	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs534493	0.89[ASW][hapmap];0.81[LWK][hapmap]
rs7982873	0.80[AFR][1000 genomes]
rs9525075	0.88[ASW][hapmap];0.85[LWK][hapmap];0.80[AFR][1000 genomes]
rs9525076	0.89[ASW][hapmap];0.80[AFR][1000 genomes]
rs9584319	0.81[LWK][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832690	chr13:96330757-96508077	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	esv3509289	chr13:96461000-96505090	ZNF genes & repeats Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv3509290	chr13:96461000-96505090	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv832691	chr13:96478098-96659823	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv900935	chr13:96497070-96631221	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96478000-96568400	Weak transcription	Placenta	Placenta
2	chr13:96487000-96510000	Weak transcription	HUVEC	blood vessel
3	chr13:96495000-96590800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr13:96498400-96549800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr13:96499400-96515400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr13:96501800-96504000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr13:96502000-96522400	Weak transcription	Colon Smooth Muscle	Colon
8	chr13:96502200-96504200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
9	chr13:96502400-96504000	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
10	chr13:96502400-96504000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr13:96502400-96504200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr13:96502400-96535400	Weak transcription	Brain Cingulate Gyrus	brain
13	chr13:96502600-96504000	Strong transcription	Muscle Satellite Cultured Cells	--
14	chr13:96502600-96504000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr13:96502600-96504000	Strong transcription	NH-A	brain
16	chr13:96502600-96505400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr13:96502600-96506400	Strong transcription	Fetal Intestine Large	intestine
18	chr13:96502600-96552600	Weak transcription	Brain Germinal Matrix	brain
19	chr13:96502800-96506600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr13:96502800-96506800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr13:96502800-96514800	Weak transcription	Gastric	stomach
22	chr13:96502800-96562600	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr13:96503000-96506000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr13:96503000-96506200	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr13:96503000-96506600	Strong transcription	HSMM	muscle
26	chr13:96503000-96506800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr13:96503000-96506800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr13:96503000-96508600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr13:96503000-96510600	Weak transcription	NHLF	lung
30	chr13:96503000-96517400	Weak transcription	K562	blood
31	chr13:96503000-96522600	Weak transcription	Aorta	Aorta
32	chr13:96503000-96522600	Weak transcription	Pancreas	Pancrea
33	chr13:96503000-96523600	Weak transcription	Esophagus	oesophagus
34	chr13:96503000-96526800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr13:96503000-96527200	Weak transcription	Fetal Kidney	kidney
36	chr13:96503000-96567400	Weak transcription	NHEK	skin
37	chr13:96503200-96505200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr13:96503200-96505400	Strong transcription	Adipose Nuclei	Adipose
39	chr13:96503200-96506200	Weak transcription	Right Ventricle	heart
40	chr13:96503200-96506800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr13:96503200-96508200	Weak transcription	Brain Anterior Caudate	brain
42	chr13:96503200-96510200	Weak transcription	Hela-S3	cervix
43	chr13:96503200-96510400	Weak transcription	Primary monocytes fromperipheralblood	blood
44	chr13:96503200-96522600	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr13:96503200-96522800	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr13:96503200-96527800	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr13:96503200-96535200	Weak transcription	HepG2	liver
48	chr13:96503200-96542000	Weak transcription	Brain Substantia Nigra	brain
49	chr13:96503200-96542000	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr13:96503200-96542200	Weak transcription	Brain Hippocampus Middle	brain

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