Variant report

Variant	rs12196654
Chromosome Location	chr6:82549393-82549394
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:82460972..82463967-chr6:82547555..82550744,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112773	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10455392	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10455395	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10455396	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10484870	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12189633	0.84[ASN][1000 genomes]
rs12190482	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12192690	0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12194273	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12201948	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12203649	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12210686	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12214571	0.83[EUR][1000 genomes]
rs12216177	0.84[ASN][1000 genomes]
rs12662590	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1291466	0.83[ASN][1000 genomes]
rs1931621	0.96[CEU][hapmap];0.92[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs194602	0.80[ASN][1000 genomes]
rs194603	0.89[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs194629	0.81[CEU][hapmap]
rs194630	0.81[CEU][hapmap]
rs194634	0.81[CEU][hapmap]
rs194635	0.88[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs3763244	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3812147	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56710219	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6940643	0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs733415	0.83[ASN][1000 genomes]
rs915123	0.88[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs926856	0.81[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830712	chr6:82491029-82654531	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:82544600-82552000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr6:82547000-82550600	Enhancers	Stomach Mucosa	stomach
3	chr6:82547400-82549800	Enhancers	Pancreatic Islets	Pancreatic Islet
4	chr6:82548000-82554800	Weak transcription	Aorta	Aorta
5	chr6:82548200-82551600	Weak transcription	HepG2	liver
6	chr6:82548600-82552200	Weak transcription	Hela-S3	cervix
7	chr6:82548800-82553800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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