Variant report

Variant	rs9878053
Chromosome Location	chr3:51498786-51498787
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs13316894	1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13317936	1.00[AMR][1000 genomes]
rs13321111	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13322621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13325153	1.00[MEX][hapmap]
rs13327225	1.00[AMR][1000 genomes]
rs13353505	1.00[AMR][1000 genomes]
rs17051799	1.00[MEX][hapmap]
rs17051832	1.00[MEX][hapmap]
rs28454463	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28626048	1.00[AMR][1000 genomes]
rs28890042	1.00[AMR][1000 genomes]
rs6777506	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6779163	1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6782997	1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap]
rs6806124	1.00[MEX][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7627636	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs7635546	1.00[AMR][1000 genomes]
rs9812682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9826415	1.00[AMR][1000 genomes]
rs9828325	1.00[MEX][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9829002	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9841963	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9846343	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9853900	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9855214	1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9868612	1.00[AMR][1000 genomes]
rs9875513	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9880909	1.00[MEX][hapmap]

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	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51458200-51515000	Weak transcription	Fetal Brain Male	brain
2	chr3:51458400-51500200	Weak transcription	Psoas Muscle	Psoas
3	chr3:51458800-51503800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:51467800-51502000	Weak transcription	HMEC	breast
5	chr3:51467800-51524000	Weak transcription	Small Intestine	intestine
6	chr3:51475800-51499200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr3:51475800-51500400	Weak transcription	K562	blood
8	chr3:51476000-51499800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr3:51476000-51506000	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr3:51476200-51500000	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr3:51476200-51500200	Weak transcription	Osteobl	bone
12	chr3:51477200-51515000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr3:51485000-51500000	Weak transcription	A549	lung
14	chr3:51490400-51499000	Weak transcription	Fetal Heart	heart
15	chr3:51490400-51515000	Weak transcription	Stomach Mucosa	stomach
16	chr3:51491200-51500200	Weak transcription	NH-A	brain
17	chr3:51491400-51532800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr3:51495000-51532600	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr3:51495400-51505800	Weak transcription	NHLF	lung
20	chr3:51495400-51513200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr3:51495600-51505200	Strong transcription	Primary neutrophils fromperipheralblood	blood
22	chr3:51495600-51505800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:51495600-51508800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:51495600-51509600	Strong transcription	HUES64 Cell Line	embryonic stem cell
25	chr3:51495600-51509600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
26	chr3:51495800-51499400	Strong transcription	Lung	lung
27	chr3:51495800-51500600	Strong transcription	Fetal Kidney	kidney
28	chr3:51495800-51502200	Strong transcription	Thymus	Thymus
29	chr3:51495800-51502400	Strong transcription	Fetal Muscle Leg	muscle
30	chr3:51495800-51505800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:51495800-51506600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr3:51495800-51506600	Strong transcription	Adipose Nuclei	Adipose
33	chr3:51495800-51507000	Strong transcription	HUES6 Cell Line	embryonic stem cell
34	chr3:51495800-51508400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr3:51495800-51508800	Strong transcription	Duodenum Mucosa	Duodenum
36	chr3:51495800-51510400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr3:51495800-51510400	Strong transcription	Primary B cells from peripheral blood	blood
38	chr3:51495800-51510400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr3:51495800-51510600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr3:51495800-51518200	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr3:51495800-51518200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr3:51495800-51526800	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr3:51495800-51531800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr3:51496000-51502200	Strong transcription	Fetal Intestine Large	intestine
45	chr3:51496000-51506000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr3:51496000-51517800	Strong transcription	Fetal Muscle Trunk	muscle
47	chr3:51496000-51518400	Strong transcription	Fetal Stomach	stomach
48	chr3:51496000-51531800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr3:51496200-51498800	Strong transcription	Fetal Intestine Small	intestine
50	chr3:51496200-51499600	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood

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