Variant report

Variant	rs16889796
Chromosome Location	chr5:58707186-58707187
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10514864	1.00[CEU][hapmap]
rs12187142	0.92[ASN][1000 genomes]
rs12187317	0.92[ASN][1000 genomes]
rs12187338	0.92[ASN][1000 genomes]
rs12188859	0.92[ASN][1000 genomes]
rs12658429	1.00[CEU][hapmap]
rs13162275	0.86[CHB][hapmap];0.92[ASN][1000 genomes]
rs13165581	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[LWK][hapmap];0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs13189436	0.92[ASN][1000 genomes]
rs1348709	1.00[CHB][hapmap];0.92[CHD][hapmap];0.83[LWK][hapmap];0.92[ASN][1000 genomes]
rs1348710	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[ASN][1000 genomes]
rs1457110	1.00[CEU][hapmap]
rs1541672	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs1541673	0.92[ASN][1000 genomes]
rs1579845	0.92[ASN][1000 genomes]
rs16889611	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs16889682	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs16889696	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs16889743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs16889805	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[ASN][1000 genomes]
rs16889810	1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[ASN][1000 genomes]
rs16889846	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17589745	1.00[CEU][hapmap]
rs1971061	0.92[ASN][1000 genomes]
rs1975533	0.84[ASN][1000 genomes]
rs27185	1.00[CEU][hapmap]
rs27532	1.00[CEU][hapmap]
rs28696115	0.92[ASN][1000 genomes]
rs2898243	0.88[ASN][1000 genomes]
rs34084254	0.92[ASN][1000 genomes]
rs34118182	0.92[ASN][1000 genomes]
rs34468745	0.92[ASN][1000 genomes]
rs34624326	0.92[ASN][1000 genomes]
rs34733788	0.92[ASN][1000 genomes]
rs34797165	0.92[ASN][1000 genomes]
rs34873866	0.88[ASN][1000 genomes]
rs35643183	0.92[ASN][1000 genomes]
rs62357468	0.92[ASN][1000 genomes]
rs62357478	0.92[ASN][1000 genomes]
rs62357496	0.92[ASN][1000 genomes]
rs6450516	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs6450518	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap]
rs6861992	1.00[CHB][hapmap];0.91[CHD][hapmap];0.92[ASN][1000 genomes]
rs6869578	0.92[ASN][1000 genomes]
rs6869945	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6870927	0.92[ASN][1000 genomes]
rs6871410	0.92[ASN][1000 genomes]
rs6872808	1.00[CEU][hapmap];0.89[YRI][hapmap]
rs6874460	1.00[CHB][hapmap];0.86[CHD][hapmap];0.88[ASN][1000 genomes]
rs6874473	0.92[ASN][1000 genomes]
rs6875027	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs6875497	0.92[ASN][1000 genomes]
rs6876934	0.92[ASN][1000 genomes]
rs6877826	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6879049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6879216	0.92[ASN][1000 genomes]
rs6879510	0.90[ASN][1000 genomes]
rs6879949	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[ASN][1000 genomes]
rs6883834	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs6885690	0.92[ASN][1000 genomes]
rs6888059	0.92[ASN][1000 genomes]
rs6888644	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]
rs6889851	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.88[ASN][1000 genomes]
rs6891589	0.92[ASN][1000 genomes]
rs6892252	0.92[ASN][1000 genomes]
rs6892534	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6892879	0.92[ASN][1000 genomes]
rs6893655	0.92[ASN][1000 genomes]
rs6893668	0.92[ASN][1000 genomes]
rs6893986	0.92[ASN][1000 genomes]
rs6895550	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6895685	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs6896519	0.90[ASN][1000 genomes]
rs6898269	1.00[CEU][hapmap]
rs73095430	0.88[ASN][1000 genomes]
rs7700870	1.00[CEU][hapmap]
rs7701455	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs7703702	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7735228	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs7735376	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs7735572	0.92[ASN][1000 genomes]
rs7736808	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs9918215	0.92[ASN][1000 genomes]
rs9918225	0.92[ASN][1000 genomes]
rs9918228	1.00[CHB][hapmap];0.92[CHD][hapmap];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	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
5	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
6	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
7	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58682000-58711800	Weak transcription	Psoas Muscle	Psoas
2	chr5:58704200-58714200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr5:58704600-58708400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:58704600-58712000	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr5:58704600-58712200	Weak transcription	Fetal Lung	lung
6	chr5:58704800-58711600	Weak transcription	Fetal Stomach	stomach
7	chr5:58705600-58710000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr5:58705600-58751400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr5:58706400-58709800	Strong transcription	A549	lung
10	chr5:58707000-58707600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell

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