Variant report

Variant	rs2164476
Chromosome Location	chr3:25365011-25365012
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11709169	0.91[EUR][1000 genomes]
rs11720675	0.84[ASN][1000 genomes]
rs1436251	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1483837	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17016187	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17016204	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17588596	0.84[JPT][hapmap]
rs1905465	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1984597	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6550961	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6771956	0.91[EUR][1000 genomes]
rs6774199	0.94[EUR][1000 genomes]
rs6799363	0.92[EUR][1000 genomes]
rs7615609	0.91[EUR][1000 genomes]
rs9818293	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9822411	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9837851	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9848513	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9877461	1.00[CHB][hapmap];1.00[JPT][hapmap]

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	nsv949035	chr3:25194301-26084890	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	68 gene(s)	inside rSNPs	diseases
2	nsv876632	chr3:25325479-25366205	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv834645	chr3:25363723-25555107	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:25364400-25366000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr3:25364600-25366000	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr3:25365000-25365400	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:25365000-25365800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
5	chr3:25365000-25365800	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr3:25365000-25366000	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr3:25365000-25366000	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr3:25365000-25366000	Enhancers	iPS-20b Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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