Variant report

Variant	rs12339300
Chromosome Location	chr9:97453851-97453852
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10081702	0.91[CEU][hapmap];0.91[CHB][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10114975	0.93[AFR][1000 genomes]
rs10115614	0.93[AFR][1000 genomes]
rs10116221	0.93[AFR][1000 genomes]
rs10117499	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10117956	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10118261	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10119354	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124037	0.93[AFR][1000 genomes]
rs10124091	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10124217	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10125337	0.89[YRI][hapmap]
rs10993307	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993308	0.93[AFR][1000 genomes]
rs10993320	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12115845	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12335651	0.93[AFR][1000 genomes]
rs12344517	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12344604	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12346245	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12347853	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12350284	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12685159	0.85[GIH][hapmap]
rs13287373	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13295608	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13298361	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1571144	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16911536	0.91[CEU][hapmap];0.91[CHB][hapmap];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16911594	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28552494	0.88[AFR][1000 genomes]
rs34089610	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34165368	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34198898	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34274440	0.91[EUR][1000 genomes]
rs34540802	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34705993	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35060589	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35121098	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35414853	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35823631	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35840707	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35984007	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36025648	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs36039841	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55718833	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56268713	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56338410	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58782985	0.88[AFR][1000 genomes]
rs60605105	0.81[ASN][1000 genomes]
rs61247576	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6479563	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67161795	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67845333	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7018945	0.88[AFR][1000 genomes]
rs7032765	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7036063	0.88[AFR][1000 genomes]
rs7046521	0.88[AFR][1000 genomes]
rs72747008	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7850175	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7859242	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7871632	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7874823	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9696054	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9696547	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv893597	chr9:97380597-97463435	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1041922	chr9:97444976-97536753	Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97449200-97456200	Weak transcription	Fetal Intestine Large	intestine
2	chr9:97449800-97454200	Weak transcription	A549	lung
3	chr9:97451600-97454400	Weak transcription	HepG2	liver
4	chr9:97453200-97454400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:97453400-97454600	Weak transcription	Fetal Intestine Small	intestine
6	chr9:97453600-97454200	Weak transcription	Stomach Smooth Muscle	stomach

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