Variant report

Variant	rs10820810
Chromosome Location	chr9:108264781-108264782
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10115299	0.86[EUR][1000 genomes]
rs10761100	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10816278	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10820809	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10820812	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.90[ASN][1000 genomes]
rs10820813	0.92[CEU][hapmap];0.89[CHB][hapmap];0.84[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1327354	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.98[ASN][1000 genomes]
rs1360089	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1806898	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs1815383	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1960023	1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1987634	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2225246	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2427769	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2518106	0.88[CEU][hapmap];0.95[GIH][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes]
rs2518112	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2518114	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2518116	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs2518120	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2518123	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2518124	0.91[ASN][1000 genomes]
rs2518128	0.88[CEU][hapmap];0.93[EUR][1000 genomes]
rs2518131	0.96[CEU][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs2768279	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.98[ASN][1000 genomes]
rs2768280	0.82[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs2768283	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2768290	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2768291	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2768292	0.91[ASN][1000 genomes]
rs2768294	1.00[ASW][hapmap];0.96[CEU][hapmap];0.93[GIH][hapmap];0.92[LWK][hapmap];0.97[MKK][hapmap];0.93[TSI][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2771038	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2771041	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2771042	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2812297	0.83[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];0.82[ASN][1000 genomes]
rs2812303	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2812307	0.94[ASN][1000 genomes]
rs2812308	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2812310	0.92[ASW][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];0.89[JPT][hapmap];0.92[LWK][hapmap];0.85[MEX][hapmap];0.98[MKK][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4742650	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4742947	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4742948	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6477447	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6477449	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7020083	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7357632	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.98[ASN][1000 genomes]
rs7864020	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053973	chr9:108199177-108300186	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv615115	chr9:108205262-108298183	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv893692	chr9:108218852-108320988	ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a
4	nsv1050141	chr9:108219667-108317424	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108214600-108309800	Weak transcription	HUVEC	blood vessel
2	chr9:108221000-108266000	Weak transcription	NHEK	skin
3	chr9:108221000-108277200	Weak transcription	Left Ventricle	heart
4	chr9:108222200-108277000	Weak transcription	Ovary	ovary
5	chr9:108222600-108311400	Weak transcription	Fetal Heart	heart
6	chr9:108227400-108271600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr9:108227600-108278400	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr9:108231800-108296800	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr9:108232600-108268800	Weak transcription	Fetal Brain Female	brain
10	chr9:108233600-108269200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr9:108233600-108272000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr9:108233600-108272400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:108233600-108277000	Weak transcription	Adipose Nuclei	Adipose
14	chr9:108242600-108300000	Weak transcription	Brain Anterior Caudate	brain
15	chr9:108247800-108271600	Weak transcription	NH-A	brain
16	chr9:108248000-108276000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr9:108250600-108268800	Weak transcription	HSMM	muscle
18	chr9:108250800-108268800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr9:108251200-108268600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr9:108251600-108266400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr9:108251600-108272000	Weak transcription	HMEC	breast
22	chr9:108251800-108268800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr9:108257400-108265400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr9:108257400-108269000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr9:108257600-108269000	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr9:108258200-108266000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr9:108258200-108277200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr9:108258200-108282000	Weak transcription	Psoas Muscle	Psoas
29	chr9:108258400-108276800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr9:108258400-108276800	Weak transcription	Brain Germinal Matrix	brain
31	chr9:108258800-108268800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr9:108259000-108277000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr9:108259600-108272200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr9:108259600-108282000	Weak transcription	HSMMtube	muscle
35	chr9:108259800-108268800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr9:108260400-108268400	Weak transcription	HepG2	liver
37	chr9:108261600-108265000	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr9:108262000-108268000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr9:108262800-108277000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr9:108262800-108277600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr9:108263000-108266200	Weak transcription	NHDF-Ad	bronchial
42	chr9:108263000-108277400	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr9:108263400-108265600	Active TSS	GM12878-XiMat	blood
44	chr9:108263800-108266000	Weak transcription	A549	lung
45	chr9:108263800-108269400	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr9:108264000-108275000	Weak transcription	Primary B cells from cord blood	blood
47	chr9:108264200-108265000	Enhancers	Muscle Satellite Cultured Cells	--
48	chr9:108264200-108269200	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr9:108264600-108264800	Enhancers	Osteobl	bone

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