Variant report

Variant	rs7854979
Chromosome Location	chr9:16612382-16612383
allele	A/C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10116857	0.85[EUR][1000 genomes]
rs10118895	1.00[CEU][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10120281	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10122372	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10124530	1.00[CEU][hapmap];0.93[YRI][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10125014	1.00[CEU][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733311	0.90[ASN][1000 genomes]
rs10733312	0.91[EUR][1000 genomes]
rs10738437	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10738439	0.86[EUR][1000 genomes]
rs10738440	1.00[CEU][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10738441	0.96[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10738442	1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10738443	0.84[YRI][hapmap];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10756764	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10756765	0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10756766	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10756767	1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10756768	1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10756770	1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10962484	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs10962510	1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12000426	1.00[CEU][hapmap]
rs12004304	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12337676	0.89[EUR][1000 genomes]
rs12339625	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12350242	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1337393	0.91[EUR][1000 genomes]
rs1337400	0.89[EUR][1000 genomes]
rs1415475	0.87[EUR][1000 genomes]
rs1415476	0.89[EUR][1000 genomes]
rs1538102	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16934816	1.00[CEU][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16934842	0.85[EUR][1000 genomes]
rs16934855	1.00[CEU][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16934875	0.90[ASN][1000 genomes]
rs16934886	0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17738890	0.84[EUR][1000 genomes]
rs1927626	0.89[EUR][1000 genomes]
rs2095657	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2149159	0.83[EUR][1000 genomes]
rs28428651	0.86[EUR][1000 genomes]
rs28490464	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28501274	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28648047	0.86[EUR][1000 genomes]
rs28651010	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34950291	0.90[ASN][1000 genomes]
rs4466493	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4961725	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4961726	0.90[ASN][1000 genomes]
rs56218971	0.84[EUR][1000 genomes]
rs7018743	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs7018877	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7019016	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7019105	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7019625	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7032239	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs7032523	1.00[CEU][hapmap]
rs7032772	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs7034606	0.96[AMR][1000 genomes]
rs7035303	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes]
rs7036282	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7048399	0.91[EUR][1000 genomes]
rs7048805	0.86[EUR][1000 genomes]
rs7049170	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs725011	0.85[EUR][1000 genomes]
rs73417477	0.86[EUR][1000 genomes]
rs73421425	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7470623	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7856477	0.83[EUR][1000 genomes]
rs7859395	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7870508	1.00[CEU][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7870730	0.85[YRI][hapmap];0.88[AFR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7873338	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1032856	chr9:16465330-16773471	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv540073	chr9:16465330-16773471	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv430000	chr9:16603483-16671045	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16599000-16612600	Weak transcription	HSMM	muscle
2	chr9:16602800-16612400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:16603200-16612600	Weak transcription	HUVEC	blood vessel
4	chr9:16606200-16613600	Weak transcription	HSMMtube	muscle
5	chr9:16606200-16615000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr9:16607000-16618400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:16608400-16618600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr9:16609400-16613600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr9:16609600-16612600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr9:16609600-16618000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr9:16609600-16619800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr9:16610000-16612800	Weak transcription	Ovary	ovary
13	chr9:16610200-16614400	Enhancers	NHDF-Ad	bronchial
14	chr9:16610800-16612600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr9:16610800-16613000	Enhancers	Colon Smooth Muscle	Colon
16	chr9:16610800-16613600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr9:16611000-16613800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr9:16611200-16614200	Enhancers	NHLF	lung
19	chr9:16611200-16615200	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr9:16611200-16618000	Weak transcription	Fetal Stomach	stomach
21	chr9:16611400-16615600	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr9:16611400-16626400	Weak transcription	Aorta	Aorta
23	chr9:16611600-16614200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr9:16611600-16618800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr9:16611800-16612600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr9:16611800-16619000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr9:16611800-16619600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr9:16612200-16612400	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr9:16612200-16612800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr9:16612200-16613200	Enhancers	Muscle Satellite Cultured Cells	--
31	chr9:16612200-16613400	Enhancers	Osteobl	bone

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