Variant report

Variant	rs2343579
Chromosome Location	chr4:62629856-62629857
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10011776	0.80[AMR][1000 genomes]
rs10013153	0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11732081	0.80[EUR][1000 genomes]
rs11732258	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12646006	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12646895	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13132632	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13138257	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2343575	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2343576	0.88[EUR][1000 genomes]
rs2343577	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2343578	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2343580	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35015281	0.83[EUR][1000 genomes]
rs4241640	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs4339245	0.84[EUR][1000 genomes]
rs4351047	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs4371644	0.85[EUR][1000 genomes]
rs4458480	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4495065	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs4513598	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4623040	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4639106	0.85[EUR][1000 genomes]
rs4860100	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4860102	0.87[EUR][1000 genomes]
rs4860426	0.80[EUR][1000 genomes]
rs4860427	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs4860429	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs62306769	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6551647	0.82[AMR][1000 genomes]
rs6551648	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6551649	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs6551654	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6843246	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs6848543	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6855108	0.84[CEU][hapmap]
rs7376314	0.86[EUR][1000 genomes]
rs7663116	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7684797	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7691557	0.81[EUR][1000 genomes]
rs7691558	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7691739	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7691805	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7695664	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7699021	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7699533	0.85[EUR][1000 genomes]
rs9998958	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461377	chr4:62368762-62883431	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv594328	chr4:62368762-62883431	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv829949	chr4:62615637-62761629	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62623600-62631600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
2	chr4:62623800-62632200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
3	chr4:62624000-62633000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
4	chr4:62624800-62632400	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
5	chr4:62624800-62633400	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
6	chr4:62625200-62632600	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
7	chr4:62625200-62633000	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
8	chr4:62625400-62630600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
9	chr4:62625400-62631000	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
10	chr4:62625400-62632600	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
11	chr4:62627600-62631400	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr4:62627800-62631400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr4:62627800-62635800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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