Variant report

Variant	rs12564406
Chromosome Location	chr1:192304891-192304892
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:192295956..192298127-chr1:192303697..192305809,2	K562	blood:
2	chr1:192296149..192298127-chr1:192303474..192305809,2	K562	blood:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10157255	0.93[CHB][hapmap]
rs10494671	0.91[CEU][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap]
rs10494672	0.93[CHB][hapmap];0.81[YRI][hapmap]
rs10801110	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10921134	0.91[CEU][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap]
rs1124172	0.93[CHB][hapmap];0.80[YRI][hapmap]
rs1175115	0.80[EUR][1000 genomes]
rs1175117	0.84[EUR][1000 genomes]
rs1175120	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1175125	0.85[EUR][1000 genomes]
rs1175142	0.95[CEU][hapmap];1.00[CHB][hapmap]
rs1175145	0.93[CHB][hapmap]
rs1175147	0.93[CHB][hapmap]
rs1175157	0.82[EUR][1000 genomes]
rs11802527	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12074962	0.86[CEU][hapmap];0.80[YRI][hapmap]
rs12076472	0.91[CEU][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12076553	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12087502	0.95[CEU][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12087641	0.95[CEU][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12124127	0.93[CHB][hapmap]
rs12566011	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1339129	0.93[CHB][hapmap];0.80[YRI][hapmap]
rs1339130	1.00[CHB][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1339131	0.93[CHB][hapmap]
rs1339132	0.91[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1343944	0.96[CEU][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap]
rs1416500	0.91[CEU][hapmap];1.00[CHB][hapmap]
rs1538487	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1572729	0.93[CHB][hapmap];0.80[YRI][hapmap]
rs16834199	0.91[CEU][hapmap];0.86[JPT][hapmap];0.96[YRI][hapmap]
rs17414071	0.95[CEU][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap]
rs1892145	0.91[CEU][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.81[AMR][1000 genomes]
rs1892147	0.91[CEU][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap]
rs1934087	0.91[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.83[YRI][hapmap]
rs2211111	1.00[CHB][hapmap]
rs6428092	0.91[EUR][1000 genomes]
rs6428094	0.93[CHB][hapmap]
rs6428095	0.93[CHB][hapmap]
rs6659110	0.92[CHB][hapmap]
rs6659966	0.96[CEU][hapmap];1.00[CHB][hapmap];0.82[YRI][hapmap]
rs6663865	0.93[CHB][hapmap]
rs6684918	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap]
rs7512102	0.96[CEU][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap]
rs7514892	0.87[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs7518733	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7518835	0.91[CEU][hapmap];0.86[JPT][hapmap];0.97[YRI][hapmap];0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7520486	0.86[JPT][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7532216	0.93[CHB][hapmap];0.80[YRI][hapmap]
rs7534108	0.94[CEU][hapmap];0.85[JPT][hapmap]
rs7544311	0.93[CHB][hapmap];0.80[YRI][hapmap]
rs7545041	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7545796	0.91[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];0.85[AFR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7554535	0.93[CHB][hapmap]
rs946421	0.93[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv548649	chr1:192215064-192378979	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv872829	chr1:192230089-192370110	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv872830	chr1:192236376-192353005	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv548650	chr1:192246590-192324175	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv548651	chr1:192249116-192324175	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv548652	chr1:192249116-192353005	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv548653	chr1:192249116-192370110	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv548654	chr1:192249116-192373779	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv548655	chr1:192259645-192372674	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv548656	chr1:192283229-192372674	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv548657	chr1:192296038-192373779	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:192303600-192307000	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr1:192303800-192306800	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr1:192304000-192306000	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr1:192304000-192308000	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr1:192304600-192305800	Enhancers	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links