Variant report

Variant	rs6909527
Chromosome Location	chr6:149464366-149464367
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149460552..149463387-chr6:149463525..149465749,3	K562	blood:
2	chr6:149463112..149464971-chr6:149638283..149640463,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000055208	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10457075	1.00[JPT][hapmap]
rs10457839	1.00[JPT][hapmap]
rs10457842	1.00[JPT][hapmap]
rs10499251	1.00[JPT][hapmap]
rs11155624	0.88[EUR][1000 genomes]
rs11155626	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11155630	0.96[ASN][1000 genomes]
rs12153925	1.00[JPT][hapmap]
rs12189850	0.88[EUR][1000 genomes]
rs12190751	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195850	0.96[ASN][1000 genomes]
rs12196284	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12196893	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12197040	1.00[JPT][hapmap]
rs12200379	0.96[ASN][1000 genomes]
rs12200909	1.00[JPT][hapmap]
rs12202158	1.00[JPT][hapmap]
rs12203266	0.88[EUR][1000 genomes]
rs12203302	0.88[EUR][1000 genomes]
rs12203458	0.88[EUR][1000 genomes]
rs12205636	0.88[EUR][1000 genomes]
rs12206419	1.00[JPT][hapmap]
rs12206852	0.87[EUR][1000 genomes]
rs12208882	0.88[EUR][1000 genomes]
rs12208962	0.88[EUR][1000 genomes]
rs12210317	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12213636	0.96[ASN][1000 genomes]
rs12216095	0.88[EUR][1000 genomes]
rs12216166	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13217006	1.00[JPT][hapmap]
rs17669546	1.00[JPT][hapmap]
rs1890610	1.00[JPT][hapmap]
rs1890612	1.00[JPT][hapmap]
rs1934221	1.00[JPT][hapmap]
rs1934222	1.00[JPT][hapmap]
rs2153251	1.00[JPT][hapmap]
rs2153252	1.00[JPT][hapmap]
rs2185250	1.00[JPT][hapmap]
rs35733790	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3949414	1.00[JPT][hapmap]
rs4073251	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4336467	1.00[JPT][hapmap]
rs4400235	0.88[EUR][1000 genomes]
rs4454159	1.00[JPT][hapmap]
rs4470876	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4537169	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4579380	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs57241335	0.88[EUR][1000 genomes]
rs57369633	0.88[EUR][1000 genomes]
rs57471912	0.88[EUR][1000 genomes]
rs58638760	0.88[ASN][1000 genomes]
rs59828569	0.88[EUR][1000 genomes]
rs6570923	1.00[JPT][hapmap]
rs6570924	1.00[JPT][hapmap]
rs6570926	1.00[JPT][hapmap]
rs6570927	1.00[JPT][hapmap]
rs6570932	1.00[JPT][hapmap]
rs6900527	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6901626	1.00[JPT][hapmap]
rs6909624	1.00[JPT][hapmap]
rs6914281	1.00[JPT][hapmap]
rs6914318	1.00[JPT][hapmap]
rs6914925	1.00[JPT][hapmap]
rs6917010	1.00[JPT][hapmap]
rs6919190	0.88[EUR][1000 genomes]
rs6919690	0.88[EUR][1000 genomes]
rs6930713	1.00[JPT][hapmap]
rs6940664	1.00[JPT][hapmap]
rs6940915	1.00[JPT][hapmap]
rs72989962	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72989978	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72993821	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72993840	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73004281	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73004286	0.88[EUR][1000 genomes]
rs73600091	0.96[ASN][1000 genomes]
rs73779024	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7743674	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7753909	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7754166	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7758462	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7761635	0.88[EUR][1000 genomes]
rs7761698	0.88[EUR][1000 genomes]
rs7762164	0.88[EUR][1000 genomes]
rs7762928	1.00[JPT][hapmap]
rs7764138	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7766254	0.88[EUR][1000 genomes]
rs7768166	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7773409	1.00[JPT][hapmap]
rs7774537	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7776204	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9322165	1.00[JPT][hapmap]
rs9390657	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9485353	1.00[JPT][hapmap]
rs9498199	1.00[JPT][hapmap]
rs9498201	1.00[JPT][hapmap]
rs9498202	1.00[JPT][hapmap]
rs9498204	1.00[JPT][hapmap]
rs9498205	1.00[JPT][hapmap]
rs9498207	1.00[JPT][hapmap]
rs9918331	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9918332	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032319	chr6:149271433-149550525	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538470	chr6:149271433-149550525	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1024776	chr6:149398652-149654593	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1034080	chr6:149456387-149480990	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149461800-149468400	Weak transcription	Fetal Lung	lung
2	chr6:149462200-149464800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
3	chr6:149462400-149464600	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr6:149462400-149469000	Weak transcription	K562	blood
5	chr6:149463400-149467600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr6:149463800-149467600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:149463800-149467600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr6:149464000-149464600	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
9	chr6:149464200-149464400	ZNF genes & repeats	Primary T cells effector/memory enriched fromperipheralblood	blood

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