Variant report

Variant	rs6671557
Chromosome Location	chr1:72220321-72220322
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10789328	0.89[ASN][1000 genomes]
rs10789330	0.89[ASN][1000 genomes]
rs11209818	0.90[JPT][hapmap]
rs11209837	0.94[ASN][1000 genomes]
rs11209840	0.87[ASN][1000 genomes]
rs11209841	0.93[CHB][hapmap];0.90[JPT][hapmap]
rs11209842	0.93[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs11578097	1.00[CEU][hapmap];0.93[CHB][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.81[TSI][hapmap]
rs11584866	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.90[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1158573	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs11588321	1.00[CEU][hapmap];0.93[CHB][hapmap]
rs12023733	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12023757	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12024388	1.00[CEU][hapmap];0.93[CHB][hapmap];0.90[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.90[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12030035	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12030511	1.00[CEU][hapmap];0.93[GIH][hapmap];0.81[TSI][hapmap]
rs12031657	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs12031842	1.00[CEU][hapmap];0.81[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs12037107	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs12039538	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12040327	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.81[TSI][hapmap]
rs12041607	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs12043796	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap]
rs12048869	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.90[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12078969	1.00[CEU][hapmap];0.93[CHB][hapmap]
rs12731898	0.89[ASN][1000 genomes]
rs1459795	0.86[ASN][1000 genomes]
rs1459796	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1459801	0.89[ASN][1000 genomes]
rs1491198	0.93[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs1591382	1.00[JPT][hapmap]
rs17091704	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[GIH][hapmap];0.90[JPT][hapmap];0.90[TSI][hapmap]
rs17091710	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]
rs17091758	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1817805	0.89[ASN][1000 genomes]
rs1844788	0.89[ASN][1000 genomes]
rs1870523	0.93[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs1870524	0.94[ASN][1000 genomes]
rs1870525	0.93[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs2061495	0.89[ASN][1000 genomes]
rs2125775	0.93[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs2125776	0.93[CHB][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs2125777	0.93[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs2169096	0.89[ASN][1000 genomes]
rs4649943	0.81[JPT][hapmap]
rs4649945	0.93[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs4649947	0.93[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs4649949	0.93[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs4649950	0.93[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs4650121	0.89[ASN][1000 genomes]
rs4650122	0.89[ASN][1000 genomes]
rs482060	0.81[CHB][hapmap]
rs57227393	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57839383	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs59851000	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6424447	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6424448	0.93[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs6697370	1.00[CEU][hapmap];0.93[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6701156	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72944128	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72944129	0.95[EUR][1000 genomes]
rs72944192	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72946013	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72946022	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72946034	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72948021	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7520452	0.84[ASN][1000 genomes]
rs7528030	1.00[CEU][hapmap];0.93[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7531512	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs7541406	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7546909	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9662397	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949599	chr1:71655652-72327802	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv1007250	chr1:71998391-72350683	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv534992	chr1:71998391-72350683	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv948821	chr1:72049987-72477221	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1003446	chr1:72060680-72419918	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv461884	chr1:72077549-72238691	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv546476	chr1:72077549-72238691	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv817447	chr1:72098815-72558020	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1008210	chr1:72099161-72374197	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv533779	chr1:72124095-72241965	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv830181	chr1:72155983-72296578	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv916783	chr1:72196061-72707953	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 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	chr1:72218000-72221000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr1:72219400-72220400	Enhancers	Thymus	Thymus
3	chr1:72219400-72220600	Enhancers	Fetal Thymus	thymus
4	chr1:72220000-72221000	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr1:72220200-72220600	Weak transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links