Variant report

Variant	rs1006643
Chromosome Location	chr4:96760577-96760578
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10000897	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10008305	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10011321	0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10019264	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10026739	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10212672	0.84[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10212751	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10212823	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1076860	1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11097486	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12506801	0.94[ASN][1000 genomes]
rs12510298	0.91[ASN][1000 genomes]
rs13104815	0.93[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13106992	0.85[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13107501	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13114782	0.85[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13115178	0.86[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1369982	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1436535	0.94[ASN][1000 genomes]
rs1436539	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1436540	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1436552	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17409065	0.86[GIH][hapmap]
rs1816556	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1821736	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1821737	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs1836898	0.94[ASN][1000 genomes]
rs1836899	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2219277	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4699472	0.89[ASN][1000 genomes]
rs6532577	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6821954	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6840758	0.97[ASN][1000 genomes]
rs6842353	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6842388	0.93[AFR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6842436	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6844037	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6848398	0.93[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6848743	0.93[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7659447	0.95[ASN][1000 genomes]
rs920155	0.93[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs920157	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9998027	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997304	chr4:96575198-96861349	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1010830	chr4:96607025-96862878	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv537191	chr4:96607025-96862878	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv594915	chr4:96628653-97086618	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv428767	chr4:96676384-96831793	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv879628	chr4:96739251-96778499	Flanking Active TSS Weak transcription Enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv879629	chr4:96747135-96818263	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv10537	chr4:96757571-96956294	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96758600-96760600	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr4:96758600-96760800	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr4:96758800-96761000	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr4:96759400-96760600	Enhancers	H9 Cell Line	embryonic stem cell
5	chr4:96760400-96761000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr4:96760400-96761400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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