Variant report

Variant	rs16889743
Chromosome Location	chr5:58683455-58683456
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10514864	1.00[CEU][hapmap]
rs12187142	0.80[ASN][1000 genomes]
rs12187317	0.80[ASN][1000 genomes]
rs12187338	0.80[ASN][1000 genomes]
rs12188859	0.80[ASN][1000 genomes]
rs12658429	1.00[CEU][hapmap]
rs13162275	0.86[CHB][hapmap];0.80[ASN][1000 genomes]
rs13165581	1.00[CHB][hapmap]
rs13189436	0.80[ASN][1000 genomes]
rs1348709	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs1348710	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs1445947	1.00[CEU][hapmap]
rs1457110	1.00[CEU][hapmap]
rs1541672	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs1541673	0.80[ASN][1000 genomes]
rs154223	1.00[CEU][hapmap]
rs1579845	0.80[ASN][1000 genomes]
rs16889611	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs16889682	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16889696	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs16889796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs16889805	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs16889810	1.00[CHB][hapmap]
rs16889846	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs17589745	1.00[CEU][hapmap]
rs1971061	0.80[ASN][1000 genomes]
rs27185	1.00[CEU][hapmap]
rs27532	1.00[CEU][hapmap]
rs28696115	0.80[ASN][1000 genomes]
rs34084254	0.80[ASN][1000 genomes]
rs34118182	0.80[ASN][1000 genomes]
rs34468745	0.80[ASN][1000 genomes]
rs34624326	0.80[ASN][1000 genomes]
rs34733788	0.80[ASN][1000 genomes]
rs34797165	0.80[ASN][1000 genomes]
rs35643183	0.80[ASN][1000 genomes]
rs56874033	1.00[EUR][1000 genomes]
rs61021367	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62357468	0.80[ASN][1000 genomes]
rs62357478	0.80[ASN][1000 genomes]
rs62357496	0.80[ASN][1000 genomes]
rs6450516	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6450518	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6861992	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs6869578	0.80[ASN][1000 genomes]
rs6869945	0.96[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6870927	0.80[ASN][1000 genomes]
rs6871410	0.80[ASN][1000 genomes]
rs6872808	1.00[CEU][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6874460	1.00[CHB][hapmap]
rs6874473	0.80[ASN][1000 genomes]
rs6875027	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs6875497	0.80[ASN][1000 genomes]
rs6876934	0.80[ASN][1000 genomes]
rs6877826	0.96[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6879049	0.96[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6879216	0.80[ASN][1000 genomes]
rs6879949	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs6883834	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs6885690	0.80[ASN][1000 genomes]
rs6888059	0.80[ASN][1000 genomes]
rs6888644	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6889851	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6891589	0.80[ASN][1000 genomes]
rs6892252	0.80[ASN][1000 genomes]
rs6892534	0.88[ASN][1000 genomes]
rs6892879	0.80[ASN][1000 genomes]
rs6893655	0.80[ASN][1000 genomes]
rs6893668	0.80[ASN][1000 genomes]
rs6893986	0.80[ASN][1000 genomes]
rs6895550	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6895685	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6898269	1.00[CEU][hapmap]
rs73092919	1.00[EUR][1000 genomes]
rs73092930	1.00[EUR][1000 genomes]
rs73092991	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73095430	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7700870	1.00[CEU][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7701455	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs7703702	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7733716	1.00[EUR][1000 genomes]
rs7735133	1.00[EUR][1000 genomes]
rs7735228	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs7735376	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs7735572	0.80[ASN][1000 genomes]
rs7736808	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs9918215	0.80[ASN][1000 genomes]
rs9918225	0.80[ASN][1000 genomes]
rs9918228	1.00[CHB][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023628	chr5:58557950-58757438	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv917274	chr5:58565291-58814374	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv1030716	chr5:58636116-58718362	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1032732	chr5:58637179-58689010	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv1022160	chr5:58645805-58689010	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv881705	chr5:58668669-58745872	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv1028022	chr5:58673780-58786468	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1034656	chr5:58674724-58755580	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv598253	chr5:58675538-58754510	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv1032887	chr5:58678623-58690251	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58672200-58689200	Weak transcription	Fetal Brain Female	brain
2	chr5:58676400-58686200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr5:58682000-58711800	Weak transcription	Psoas Muscle	Psoas
4	chr5:58683000-58684400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr5:58683200-58686200	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr5:58683400-58684000	Weak transcription	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links