Variant report

Variant	rs9856118
Chromosome Location	chr3:151078216-151078217
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10513387	0.83[CEU][hapmap]
rs10513393	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];0.97[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13321176	0.94[CEU][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap]
rs13322120	0.89[CEU][hapmap]
rs13327359	0.88[CEU][hapmap]
rs1388625	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1549829	0.83[CEU][hapmap];1.00[LWK][hapmap]
rs1554120	0.83[CEU][hapmap]
rs16863273	1.00[CHB][hapmap]
rs17204437	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17204459	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap]
rs17282940	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17282947	0.94[CEU][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17290219	0.83[CEU][hapmap]
rs17304673	0.93[CEU][hapmap];0.90[AFR][1000 genomes]
rs28386791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28734805	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs55751359	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6780660	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6792089	0.94[CEU][hapmap];1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs73157938	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs73157954	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73157974	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73157991	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7633788	0.89[CEU][hapmap]
rs7633828	0.88[CEU][hapmap]
rs7634096	0.89[CEU][hapmap]
rs7637803	0.89[CEU][hapmap]
rs9289837	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap]
rs9812617	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9814936	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9817216	0.94[CEU][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap]
rs9819885	0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9821937	0.94[CEU][hapmap]
rs9831242	0.94[CEU][hapmap];0.89[MEX][hapmap];0.85[TSI][hapmap]
rs9834154	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9836053	0.83[CEU][hapmap]
rs9838990	0.94[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9840232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9841430	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9844557	0.88[CEU][hapmap]
rs9848789	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9854017	0.94[CEU][hapmap]
rs9855202	0.89[CEU][hapmap];1.00[GIH][hapmap];0.89[MEX][hapmap]
rs9859552	0.89[CEU][hapmap]
rs9859854	0.94[CEU][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9867524	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9868643	0.94[CEU][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9871229	0.89[AFR][1000 genomes]
rs9871624	0.83[CEU][hapmap]
rs9872645	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9875587	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9876268	0.94[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9876933	0.94[CEU][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9880395	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9881116	1.00[ASW][hapmap];0.89[CEU][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv829757	chr3:151044880-151226442	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151063800-151099800	Weak transcription	Fetal Intestine Small	intestine
2	chr3:151064400-151089200	Weak transcription	NHLF	lung
3	chr3:151064600-151112400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr3:151065400-151079600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:151065600-151109400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:151065600-151115200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:151065800-151082200	Weak transcription	Fetal Thymus	thymus
8	chr3:151067800-151083600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:151068000-151078800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr3:151068000-151079600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:151068000-151082600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:151069200-151078800	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:151069200-151078800	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:151069400-151129800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr3:151070400-151082800	Weak transcription	Primary hematopoietic stem cells	blood
16	chr3:151072400-151080200	Weak transcription	Placenta	Placenta
17	chr3:151072400-151089800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr3:151072400-151091400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr3:151072600-151099800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr3:151074200-151082800	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr3:151074200-151083800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:151074200-151084000	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr3:151075200-151082800	Weak transcription	Pancreas	Pancrea
24	chr3:151075200-151084000	Weak transcription	Gastric	stomach
25	chr3:151075400-151099800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr3:151075600-151078800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr3:151075600-151078800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr3:151075600-151079600	Weak transcription	Adipose Nuclei	Adipose
29	chr3:151075600-151079800	Weak transcription	Brain Anterior Caudate	brain
30	chr3:151075600-151080000	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr3:151075600-151080400	Weak transcription	Osteobl	bone
32	chr3:151075600-151136400	Weak transcription	Fetal Brain Female	brain
33	chr3:151075800-151079400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr3:151075800-151079400	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr3:151075800-151079600	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr3:151075800-151084600	Weak transcription	Dnd41	blood
37	chr3:151075800-151091200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:151075800-151101200	Weak transcription	Brain Cingulate Gyrus	brain
39	chr3:151075800-151101400	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr3:151076000-151078800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr3:151076000-151081000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr3:151076000-151083600	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr3:151076200-151079400	Weak transcription	Primary neutrophils fromperipheralblood	blood
44	chr3:151077200-151081200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr3:151078200-151078800	Strong transcription	HUES64 Cell Line	embryonic stem cell

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