Variant report

Variant	rs56820084
Chromosome Location	chr3:136132860-136132861
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs60105927	1.00[AMR][1000 genomes]
rs61235216	1.00[AMR][1000 genomes]
rs72971408	0.86[AFR][1000 genomes]
rs72987480	1.00[AMR][1000 genomes]
rs72989413	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72989418	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72989425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72989477	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv877519	chr3:136035737-136279390	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv877520	chr3:136056861-136310985	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv877521	chr3:136069286-136310985	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
6	nsv877522	chr3:136088038-136241028	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv877523	chr3:136088038-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv520012	chr3:136088038-136314119	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
9	nsv877524	chr3:136112109-136295283	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	nsv877525	chr3:136112109-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136054600-136172000	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:136063400-136139000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr3:136063400-136139000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:136063600-136139200	Weak transcription	Pancreas	Pancrea
5	chr3:136069600-136138800	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr3:136069600-136139400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:136069800-136159600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr3:136075000-136137800	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr3:136075800-136160200	Weak transcription	Brain Germinal Matrix	brain
10	chr3:136079400-136174200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr3:136085800-136139200	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr3:136085800-136174800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:136086000-136136000	Weak transcription	HSMM	muscle
14	chr3:136086200-136174800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:136095600-136134400	Weak transcription	Adipose Nuclei	Adipose
16	chr3:136095600-136137800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr3:136095800-136135200	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr3:136095800-136139200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:136096000-136138200	Weak transcription	Lung	lung
20	chr3:136096800-136133800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr3:136104800-136134000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr3:136104800-136139400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr3:136106000-136139200	Weak transcription	Colon Smooth Muscle	Colon
24	chr3:136109600-136133800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:136110000-136139000	Weak transcription	Ovary	ovary
26	chr3:136110800-136174200	Weak transcription	Esophagus	oesophagus
27	chr3:136111000-136137800	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr3:136112200-136174200	Weak transcription	Osteobl	bone
29	chr3:136113000-136174200	Weak transcription	Aorta	Aorta
30	chr3:136113800-136135400	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr3:136114400-136139800	Weak transcription	NHDF-Ad	bronchial
32	chr3:136114800-136160400	Weak transcription	Fetal Kidney	kidney
33	chr3:136115400-136174200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr3:136116200-136135200	Weak transcription	NH-A	brain
35	chr3:136116200-136173400	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr3:136116400-136133200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr3:136116600-136174400	Weak transcription	Hela-S3	cervix
38	chr3:136116800-136133800	Weak transcription	Primary B cells from cord blood	blood
39	chr3:136116800-136136600	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr3:136116800-136139200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr3:136117400-136133200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr3:136117400-136135000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr3:136117400-136135200	Weak transcription	Liver	Liver
44	chr3:136117400-136139200	Weak transcription	Rectal Smooth Muscle	rectum
45	chr3:136118200-136170400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr3:136118800-136139200	Weak transcription	NHLF	lung
47	chr3:136119600-136139200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr3:136121600-136134200	Weak transcription	Placenta	Placenta
49	chr3:136121800-136134400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr3:136121800-136134400	Weak transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links