Variant report

Variant	rs1033125
Chromosome Location	chr9:8647808-8647809
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1033126	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1033127	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1033128	0.90[JPT][hapmap];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11788419	0.90[JPT][hapmap]
rs11788439	0.90[JPT][hapmap]
rs11792966	0.90[JPT][hapmap]
rs11793328	0.86[EUR][1000 genomes]
rs11795341	0.86[EUR][1000 genomes]
rs12682756	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs12683602	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12683865	0.85[CEU][hapmap]
rs12685150	0.90[JPT][hapmap]
rs12686188	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs12686394	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12686827	0.87[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12686852	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1337804	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1361117	1.00[JPT][hapmap]
rs16924692	1.00[CEU][hapmap]
rs16928175	0.89[JPT][hapmap]
rs16928179	0.89[JPT][hapmap]
rs16928187	0.90[JPT][hapmap]
rs16928206	0.90[JPT][hapmap]
rs16928219	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16928232	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16928234	0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1999850	0.89[JPT][hapmap]
rs35286414	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3750490	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60519226	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60836031	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7046119	0.90[JPT][hapmap]
rs72698264	0.89[EUR][1000 genomes]
rs72698292	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72698293	0.90[EUR][1000 genomes]
rs72698295	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72700308	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72700311	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9792461	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv892228	chr9:8482778-8703733	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv831504	chr9:8496277-8665773	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv892231	chr9:8569186-8659757	Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv892232	chr9:8645448-8698875	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv892233	chr9:8645448-8702964	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv892234	chr9:8645448-8703733	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8616800-8648000	Weak transcription	Fetal Kidney	kidney
2	chr9:8622000-8648600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr9:8629800-8651600	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr9:8630200-8652400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr9:8631000-8649800	Weak transcription	Ovary	ovary
6	chr9:8634600-8648000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr9:8638000-8648000	Weak transcription	Fetal Brain Male	brain
8	chr9:8644000-8651800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:8644400-8660400	Weak transcription	Aorta	Aorta
10	chr9:8644600-8651200	Weak transcription	Fetal Muscle Leg	muscle
11	chr9:8645000-8651200	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr9:8645200-8651200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr9:8646800-8649000	Enhancers	Brain Substantia Nigra	brain
14	chr9:8647600-8649400	Enhancers	Brain Angular Gyrus	brain
15	chr9:8647800-8648000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr9:8647800-8648200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr9:8647800-8648200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr9:8647800-8648200	Enhancers	Placenta Amnion	Placenta Amnion
19	chr9:8647800-8648400	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr9:8647800-8648400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:8647800-8648800	Enhancers	Fetal Brain Female	brain
22	chr9:8647800-8649200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr9:8647800-8649600	Enhancers	Brain Anterior Caudate	brain
24	chr9:8647800-8650000	Enhancers	Primary hematopoietic stem cells	blood
25	chr9:8647800-8650200	Enhancers	Primary monocytes fromperipheralblood	blood
26	chr9:8647800-8650200	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr9:8647800-8651200	Enhancers	Brain Hippocampus Middle	brain
28	chr9:8647800-8651200	Enhancers	Brain Inferior Temporal Lobe	brain

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