Variant report

Variant	rs2797090
Chromosome Location	chr6:73851628-73851629
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-257K9.7.1-1	chr6:73851612-73851839	NONHSAT113532
2	lnc-RP11-257K9.7.1-1	chr6:73851612-73851839	NONHSAT113534

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs1111877	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1342343	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1418411	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1578674	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16883374	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16883411	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1891404	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1935530	0.80[YRI][hapmap]
rs1935533	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1935534	0.81[ASN][1000 genomes]
rs1935535	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1935536	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1935542	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1935543	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2000205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2051020	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2051021	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2051022	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2051023	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2051025	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2066368	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2350390	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2350749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2350750	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2796042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796043	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796046	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2796047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2796049	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2796050	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796051	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2797087	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2797088	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2797089	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2797091	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4084853	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4142649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4379253	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4635988	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4706527	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4706529	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4706531	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4706532	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4708027	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4708029	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4708030	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4708031	1.00[EUR][1000 genomes]
rs4708032	0.84[ASN][1000 genomes]
rs4708034	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4708035	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6453634	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6453635	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6453636	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6453641	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6453642	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6453643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6907117	1.00[CEU][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6925506	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6933648	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7743780	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7743974	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7762723	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7763151	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7776143	0.80[YRI][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9293919	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9293921	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9341407	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9343005	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9359016	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9359017	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9360638	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9360641	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs947611	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs947613	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3410973	chr6:73716033-74419545	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv519218	chr6:73845299-73862856	Weak transcription Enhancers Strong transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73839200-73854400	Weak transcription	Aorta	Aorta
2	chr6:73839800-73852400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:73842000-73855600	Weak transcription	HSMM	muscle
4	chr6:73844400-73867000	Weak transcription	Primary hematopoietic stem cells	blood
5	chr6:73844600-73865200	Weak transcription	Primary T cells from cord blood	blood
6	chr6:73844800-73866400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:73846000-73866400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr6:73846400-73879200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:73850800-73853000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr6:73851600-73852800	Strong transcription	Primary B cells from cord blood	blood

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