Variant report

Variant	rs12005388
Chromosome Location	chr9:27144863-27144864
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10812500	1.00[CHB][hapmap]
rs10967624	1.00[CHB][hapmap]
rs10967625	1.00[CHB][hapmap]
rs10967634	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10967639	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10967640	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10967734	1.00[ASN][1000 genomes]
rs1161603	1.00[CHB][hapmap]
rs11788136	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12336187	1.00[ASN][1000 genomes]
rs12337860	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12339162	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12340500	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12343345	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12349359	1.00[CHB][hapmap]
rs12350053	1.00[ASN][1000 genomes]
rs12350086	1.00[ASN][1000 genomes]
rs12352441	1.00[CHB][hapmap]
rs12352603	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12352631	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12551926	0.88[ASN][1000 genomes]
rs12554485	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs13293051	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16911083	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17694549	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17694796	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17756221	1.00[JPT][hapmap]
rs17756599	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17756667	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17756685	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2027124	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2152063	1.00[CHB][hapmap]
rs2991949	1.00[CHB][hapmap]
rs3429	1.00[CHB][hapmap]
rs36090003	1.00[ASN][1000 genomes]
rs4601425	0.88[CEU][hapmap]
rs596427	1.00[CHB][hapmap]
rs615532	1.00[CHB][hapmap]
rs62542751	0.83[ASN][1000 genomes]
rs62542752	1.00[ASN][1000 genomes]
rs62542753	1.00[ASN][1000 genomes]
rs62542755	1.00[ASN][1000 genomes]
rs62542757	1.00[ASN][1000 genomes]
rs62542758	1.00[ASN][1000 genomes]
rs62544592	1.00[ASN][1000 genomes]
rs62544593	1.00[ASN][1000 genomes]
rs62544597	1.00[ASN][1000 genomes]
rs62544598	1.00[ASN][1000 genomes]
rs62544599	1.00[ASN][1000 genomes]
rs62544600	1.00[ASN][1000 genomes]
rs62544601	1.00[ASN][1000 genomes]
rs62544602	0.94[ASN][1000 genomes]
rs62544603	0.94[ASN][1000 genomes]
rs62544604	0.94[ASN][1000 genomes]
rs6475959	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6475960	1.00[ASN][1000 genomes]
rs6475962	0.89[ASN][1000 genomes]
rs6475963	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6475964	1.00[ASN][1000 genomes]
rs6475966	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6475968	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs66704846	1.00[ASN][1000 genomes]
rs66779473	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67294931	1.00[ASN][1000 genomes]
rs67322240	1.00[ASN][1000 genomes]
rs67667821	1.00[ASN][1000 genomes]
rs7023335	1.00[ASN][1000 genomes]
rs7023443	1.00[ASN][1000 genomes]
rs7024233	1.00[ASN][1000 genomes]
rs7034505	0.81[CEU][hapmap];0.89[YRI][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs7037509	1.00[ASN][1000 genomes]
rs7037860	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7039400	1.00[CHB][hapmap]
rs7040772	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7042003	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7042119	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7043905	1.00[ASN][1000 genomes]
rs7044842	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs71510418	1.00[ASN][1000 genomes]
rs7847161	0.88[ASN][1000 genomes]
rs7847280	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7854048	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7862613	0.85[ASN][1000 genomes]
rs7862757	0.88[ASN][1000 genomes]
rs7871178	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7873019	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7873161	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7873329	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892862	chr9:26956663-27190655	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv1016733	chr9:27073650-27264576	Enhancers Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1022313	chr9:27083369-27250505	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1017802	chr9:27088160-27262682	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1019104	chr9:27088160-27358206	Enhancers Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv613945	chr9:27121906-27148475	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv892863	chr9:27138898-27170934	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:27122800-27150800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:27134000-27145200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:27143200-27145400	Enhancers	Fetal Muscle Leg	muscle
4	chr9:27143200-27150000	Weak transcription	Right Atrium	heart
5	chr9:27143400-27145000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:27143400-27145200	Weak transcription	Spleen	Spleen
7	chr9:27143800-27150200	Weak transcription	Fetal Lung	lung
8	chr9:27144000-27145000	Weak transcription	Left Ventricle	heart
9	chr9:27144000-27149800	Weak transcription	Lung	lung
10	chr9:27144400-27145000	Enhancers	Duodenum Smooth Muscle	Duodenum
11	chr9:27144400-27145400	Enhancers	Colon Smooth Muscle	Colon
12	chr9:27144400-27145600	Enhancers	HUVEC	blood vessel
13	chr9:27144400-27145800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr9:27144600-27145400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr9:27144600-27145400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr9:27144800-27145200	Enhancers	Fetal Stomach	stomach
17	chr9:27144800-27145400	Enhancers	Rectal Smooth Muscle	rectum
18	chr9:27144800-27145600	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr9:27144800-27145600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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