Variant report

Variant	rs10020175
Chromosome Location	chr4:79063677-79063678
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10008346	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10009577	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10014790	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10026071	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10027675	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10029277	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10032397	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10222691	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10222693	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10440393	0.98[EUR][1000 genomes]
rs10518187	0.93[EUR][1000 genomes]
rs17002926	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002927	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002937	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002965	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002971	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002972	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17002978	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17453030	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28433896	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28437781	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28438642	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28624340	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28627481	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28640590	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2867009	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28673365	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28728167	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28794638	0.95[EUR][1000 genomes]
rs28825502	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4859895	1.00[CHB][hapmap]
rs56069998	0.98[EUR][1000 genomes]
rs56209110	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56346346	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56404216	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6533375	1.00[CHB][hapmap]
rs72860675	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72860700	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9284616	1.00[CHB][hapmap]
rs9284617	1.00[CHB][hapmap]
rs9307350	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534024	chr4:78785189-79437403	ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv520625	chr4:79002655-79071788	Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv525530	chr4:79024524-79266563	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv879502	chr4:79052851-79144309	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv1010782	chr4:79057839-79387207	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 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	chr4:79054000-79068400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:79054000-79070400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr4:79057600-79068400	Weak transcription	Fetal Kidney	kidney
4	chr4:79058000-79066200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr4:79060800-79067800	Weak transcription	HepG2	liver

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