Variant report

Variant	rs1347560
Chromosome Location	chr3:25213496-25213497
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1347561	0.91[AFR][1000 genomes]
rs1347562	0.91[AFR][1000 genomes]
rs1436253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1436254	0.91[AFR][1000 genomes]
rs1436255	0.91[AFR][1000 genomes]
rs17015892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17015894	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2060563	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2060564	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2117971	0.91[AFR][1000 genomes]
rs58763127	1.00[EUR][1000 genomes]
rs6550955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73050349	1.00[ASN][1000 genomes]
rs7625082	0.91[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013446	chr3:25176609-25221334	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv876631	chr3:25185448-25231571	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	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
4	nsv508213	chr3:25206150-25326196	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:25200600-25214600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr3:25208000-25215200	Weak transcription	Fetal Lung	lung
3	chr3:25211600-25213800	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr3:25211600-25213800	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:25211600-25214000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:25211800-25216800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:25212000-25215800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:25212400-25215800	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr3:25212600-25213600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr3:25212600-25215600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr3:25212800-25216400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr3:25213000-25215600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:25213400-25213600	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr3:25213400-25213800	Enhancers	Brain Anterior Caudate	brain

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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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