Variant report

Variant	rs12686827
Chromosome Location	chr9:8622613-8622614
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1033125	0.87[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1033126	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1033127	0.84[EUR][1000 genomes]
rs1033128	0.90[JPT][hapmap];0.84[EUR][1000 genomes]
rs11788419	0.89[JPT][hapmap]
rs11788439	0.89[JPT][hapmap]
rs11792966	0.89[JPT][hapmap]
rs12682756	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs12682768	0.83[ASN][1000 genomes]
rs12683602	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12685150	0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs12686188	0.87[CEU][hapmap]
rs12686394	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12686852	0.87[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1337804	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs1361117	0.81[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs16924692	0.87[CEU][hapmap]
rs16928175	0.96[CHD][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs16928179	0.90[CHD][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs16928185	0.86[ASN][1000 genomes]
rs16928187	0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs16928206	0.93[CHD][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs16928219	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16928232	0.87[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16928234	0.94[CHD][hapmap];0.96[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1999850	0.89[JPT][hapmap]
rs35286414	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35565936	0.84[ASN][1000 genomes]
rs3750490	0.82[ASW][hapmap];0.87[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56024760	0.85[ASN][1000 genomes]
rs56025100	0.86[ASN][1000 genomes]
rs56411145	0.84[ASN][1000 genomes]
rs56774055	0.82[ASN][1000 genomes]
rs58151168	0.89[ASN][1000 genomes]
rs60519226	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60836031	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62530700	0.86[ASN][1000 genomes]
rs62530702	0.84[ASN][1000 genomes]
rs62530704	0.84[ASN][1000 genomes]
rs62530705	0.84[ASN][1000 genomes]
rs62530706	0.82[ASN][1000 genomes]
rs62530708	0.84[ASN][1000 genomes]
rs62530709	0.84[ASN][1000 genomes]
rs62530710	0.84[ASN][1000 genomes]
rs7046119	0.81[CHB][hapmap];0.91[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.95[TSI][hapmap]
rs72698211	0.87[ASN][1000 genomes]
rs72698216	0.87[ASN][1000 genomes]
rs72698264	0.92[EUR][1000 genomes]
rs72698292	0.84[EUR][1000 genomes]
rs72698293	0.84[EUR][1000 genomes]
rs72698295	0.81[EUR][1000 genomes]
rs72700308	0.84[EUR][1000 genomes]
rs72700311	0.84[EUR][1000 genomes]
rs9792461	0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv892230	chr9:8569186-8643259	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	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

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8614400-8627000	Weak transcription	Fetal Lung	lung
2	chr9:8615200-8627200	Weak transcription	Brain Germinal Matrix	brain
3	chr9:8615400-8624000	Weak transcription	Brain Angular Gyrus	brain
4	chr9:8615400-8626600	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr9:8615400-8628000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:8615400-8628000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr9:8615400-8632000	Weak transcription	Fetal Brain Male	brain
8	chr9:8615600-8627800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr9:8615600-8629200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr9:8616800-8648000	Weak transcription	Fetal Kidney	kidney
11	chr9:8620800-8628400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr9:8621000-8628000	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr9:8621600-8622800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr9:8621800-8622800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr9:8621800-8623400	Enhancers	Primary hematopoietic stem cells	blood
16	chr9:8621800-8624800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr9:8621800-8629800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr9:8622000-8648600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:8622200-8622800	Enhancers	Fetal Heart	heart
20	chr9:8622400-8623200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links