Variant report

Variant	rs6475299
Chromosome Location	chr9:18982479-18982480
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:18975628..18978246-chr9:18981249..18983402,2	K562	blood:

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10116436	0.94[ASN][1000 genomes]
rs10121747	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10125038	0.94[ASN][1000 genomes]
rs10757016	0.83[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap]
rs10757018	0.89[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs10757020	0.84[JPT][hapmap]
rs10757021	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10757022	0.92[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap]
rs10811073	0.97[ASN][1000 genomes]
rs10811074	0.97[ASN][1000 genomes]
rs10811075	1.00[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10811076	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10811078	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10811079	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10811080	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10811081	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10811082	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10811083	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10811084	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10811085	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10811092	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs10811099	0.96[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10811100	0.86[ASN][1000 genomes]
rs10963894	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963896	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10963897	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10963898	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10963907	0.81[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs10963910	0.83[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs10963911	0.84[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs10963912	0.83[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs11790123	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12352657	0.82[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12352756	0.87[CHB][hapmap];0.85[JPT][hapmap];0.92[ASN][1000 genomes]
rs12553946	1.00[CEU][hapmap];0.88[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13284512	0.92[CEU][hapmap];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs17236081	0.85[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1932445	0.91[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs1932447	0.94[ASN][1000 genomes]
rs1932449	0.83[ASN][1000 genomes]
rs1932452	1.00[CEU][hapmap];0.88[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1932453	0.88[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2152463	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2152464	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2184656	0.81[CHB][hapmap];0.84[JPT][hapmap]
rs2383082	0.94[ASN][1000 genomes]
rs2383083	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35150512	0.86[ASN][1000 genomes]
rs3892045	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4130084	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4287026	0.82[ASN][1000 genomes]
rs4380900	0.85[ASN][1000 genomes]
rs4395970	0.83[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap]
rs4506313	0.86[CHB][hapmap];0.85[JPT][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4977273	0.86[CHB][hapmap];0.81[ASN][1000 genomes]
rs4977482	0.80[ASN][1000 genomes]
rs56254400	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs62560430	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6475295	0.82[CHB][hapmap]
rs6475298	0.83[CHB][hapmap]
rs6475300	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6475301	0.87[ASN][1000 genomes]
rs6475304	0.85[ASN][1000 genomes]
rs6475305	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6475306	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs66688010	0.88[ASN][1000 genomes]
rs7020294	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7022960	0.94[ASN][1000 genomes]
rs7024697	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7025123	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7028858	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7028936	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7029677	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7037262	0.83[ASN][1000 genomes]
rs7037837	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7038730	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7048386	0.85[ASN][1000 genomes]
rs7848929	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7852907	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7856117	0.82[CHB][hapmap]
rs7857590	0.92[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7858618	0.81[JPT][hapmap]
rs7861842	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7862694	0.85[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap]
rs7864376	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7864909	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7864930	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7867428	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7870547	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7871030	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7871205	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7871456	0.86[CHB][hapmap];0.81[ASN][1000 genomes]
rs7871505	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7875035	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs883439	0.85[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap]
rs953734	0.86[CHB][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491807	chr9:18243672-19009770	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv525659	chr9:18288212-19009041	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1019127	chr9:18288271-18996288	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv892692	chr9:18519699-19045502	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv949111	chr9:18758205-18994588	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv1017820	chr9:18882219-19587377	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
7	nsv540078	chr9:18882219-19587377	Genic enhancers Transcr. at gene 5' and 3' Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
8	nsv892699	chr9:18945868-19025693	Weak transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv1022697	chr9:18951530-19010894	Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv892700	chr9:18979441-19156784	Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:18979400-18982800	Enhancers	Osteobl	bone
2	chr9:18979800-18983000	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr9:18980400-18984400	Weak transcription	Stomach Mucosa	stomach
4	chr9:18981000-18982600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr9:18981000-18983200	Enhancers	NHDF-Ad	bronchial
6	chr9:18981400-18982600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr9:18981400-18982600	Enhancers	Adipose Nuclei	Adipose
8	chr9:18981400-18982600	Enhancers	Colon Smooth Muscle	Colon
9	chr9:18981600-18982600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:18981600-18982600	Enhancers	Fetal Thymus	thymus
11	chr9:18981600-18984400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr9:18981800-18982800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr9:18981800-18984800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr9:18982000-18982600	Enhancers	NHLF	lung
15	chr9:18982200-18982600	Weak transcription	Fetal Kidney	kidney
16	chr9:18982200-18982800	Enhancers	NHEK	skin
17	chr9:18982400-18982800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr9:18982400-18982800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr9:18982400-18985200	Weak transcription	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links