Variant report

Variant	rs10809838
Chromosome Location	chr9:12766337-12766338
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10115741	0.84[EUR][1000 genomes]
rs1041175	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733247	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1074790	0.81[CHB][hapmap]
rs10756408	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10809830	0.85[ASN][1000 genomes]
rs10960780	0.86[ASN][1000 genomes]
rs10960786	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1326794	0.85[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.86[TSI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1326796	0.86[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1409631	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1409633	0.85[CEU][hapmap];0.86[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.86[TSI][hapmap];0.82[YRI][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1854022	0.85[ASN][1000 genomes]
rs1887175	1.00[CEU][hapmap];0.92[GIH][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];0.93[EUR][1000 genomes]
rs1887176	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1887177	0.85[CEU][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap];0.91[ASN][1000 genomes]
rs2147249	0.85[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2181816	0.81[CHB][hapmap]
rs2209273	1.00[CHD][hapmap];0.81[JPT][hapmap];0.91[ASN][1000 genomes]
rs2209274	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2382362	0.80[EUR][1000 genomes]
rs2382363	0.93[CHB][hapmap];0.84[CHD][hapmap];0.85[GIH][hapmap];0.81[JPT][hapmap];0.82[MEX][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2382364	0.93[CHB][hapmap];0.84[CHD][hapmap];0.82[GIH][hapmap];0.81[JPT][hapmap];0.82[MEX][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2382368	0.85[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs4996096	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6474729	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7019486	0.86[CHB][hapmap]
rs7019694	0.93[EUR][1000 genomes]
rs7019981	0.86[CHB][hapmap]
rs7025099	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7037828	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7039957	0.84[CHB][hapmap]
rs7049095	0.91[ASN][1000 genomes]
rs9696885	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2759671	chr9:12235048-12784092	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1034393	chr9:12278703-12798236	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv869288	chr9:12286919-12816766	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv498136	chr9:12387840-12984158	Genic enhancers Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv1029415	chr9:12424340-12794623	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv540064	chr9:12424340-12794623	Transcr. at gene 5' and 3' Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	esv2422212	chr9:12448789-13127738	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	esv2758182	chr9:12621991-12784092	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv613613	chr9:12641987-12773263	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv1030835	chr9:12717405-12840928	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
11	nsv892573	chr9:12730636-12874703	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
12	nsv892574	chr9:12754969-12918226	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:12761200-12771800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr9:12761600-12774800	Weak transcription	NHLF	lung
3	chr9:12763400-12766800	Enhancers	Fetal Intestine Small	intestine
4	chr9:12764400-12766400	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr9:12765000-12766800	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr9:12765200-12766400	Weak transcription	Esophagus	oesophagus
7	chr9:12765200-12766400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr9:12765200-12766600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr9:12765400-12766400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr9:12765400-12766600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr9:12765400-12770000	Weak transcription	Fetal Intestine Large	intestine
12	chr9:12765400-12772000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr9:12766000-12766800	Enhancers	Rectal Mucosa Donor 29	rectum
14	chr9:12766000-12767000	Enhancers	Fetal Lung	lung
15	chr9:12766000-12767200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr9:12766200-12766800	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr9:12766200-12766800	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr9:12766200-12767000	Enhancers	A549	lung

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