Variant report

Variant	rs12580077
Chromosome Location	chr12:39180850-39180851
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10400455	0.85[AMR][1000 genomes]
rs10506128	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11169068	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11169137	0.85[AMR][1000 genomes]
rs11169235	0.85[AMR][1000 genomes]
rs12305675	1.00[CHB][hapmap];0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs12581365	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12581620	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1486346	0.83[JPT][hapmap]
rs17126696	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1872638	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs826881	0.83[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469356	chr12:38242029-39187408	Weak transcription Active TSS ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv558574	chr12:38242029-39187408	Strong transcription ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:39153800-39188600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr12:39166600-39182000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr12:39169400-39186600	Weak transcription	Hela-S3	cervix
4	chr12:39169600-39182000	Weak transcription	Liver	Liver
5	chr12:39177400-39188600	Weak transcription	Lung	lung
6	chr12:39180000-39184800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr12:39180200-39184200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
8	chr12:39180200-39188600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr12:39180400-39181600	Weak transcription	Primary monocytes fromperipheralblood	blood

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Input of quick search could be:

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

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