Variant report

Variant	rs12194273
Chromosome Location	chr6:82544288-82544289
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	chr6:82461613..82463139-chr6:82544240..82547112,2	MCF-7	breast:
2	chr6:82535510..82539999-chr6:82542680..82545257,3	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];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10455395	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10455396	0.83[AFR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10484870	0.86[ASN][1000 genomes]
rs12189633	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12190482	0.84[ASN][1000 genomes]
rs12192690	0.87[ASN][1000 genomes]
rs12196654	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	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12203649	0.85[ASN][1000 genomes]
rs12216177	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12662590	0.88[ASN][1000 genomes]
rs1291466	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1931621	0.96[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs194602	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs194603	0.89[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs194625	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs194629	0.80[CEU][hapmap]
rs194630	0.80[CEU][hapmap]
rs194632	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs194634	0.81[CEU][hapmap]
rs194635	0.88[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3763244	0.82[EUR][1000 genomes]
rs3812147	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6923136	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6940643	0.87[ASN][1000 genomes]
rs733415	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs915123	0.88[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs926856	0.80[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:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:82540200-82544400	Enhancers	HepG2	liver
2	chr6:82540600-82544600	Enhancers	Rectal Mucosa Donor 31	rectum
3	chr6:82541000-82544800	Enhancers	Fetal Intestine Large	intestine
4	chr6:82541200-82546000	Enhancers	Stomach Mucosa	stomach
5	chr6:82541400-82544600	Enhancers	Fetal Intestine Small	intestine
6	chr6:82543200-82544600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:82543200-82544600	Enhancers	Pancreatic Islets	Pancreatic Islet
8	chr6:82543200-82544600	Enhancers	Placenta Amnion	Placenta Amnion
9	chr6:82543400-82544600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:82543400-82544600	Enhancers	HSMM	muscle
11	chr6:82543400-82544600	Enhancers	HSMMtube	muscle
12	chr6:82543600-82544400	Enhancers	Duodenum Mucosa	Duodenum
13	chr6:82543600-82544400	Enhancers	A549	lung
14	chr6:82543600-82544600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr6:82543600-82544600	Enhancers	Hela-S3	cervix
16	chr6:82543600-82544800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:82543800-82544400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:82543800-82544600	Enhancers	Fetal Heart	heart
19	chr6:82543800-82544600	Enhancers	Placenta	Placenta
20	chr6:82543800-82544600	Enhancers	NH-A	brain
21	chr6:82544000-82544400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:82544000-82544400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
23	chr6:82544000-82544400	Flanking Active TSS	NHDF-Ad	bronchial
24	chr6:82544000-82544400	Enhancers	NHLF	lung
25	chr6:82544000-82544400	Flanking Active TSS	Osteobl	bone
26	chr6:82544000-82544600	Enhancers	Ovary	ovary
27	chr6:82544000-82544600	Enhancers	Small Intestine	intestine
28	chr6:82544000-82547800	Weak transcription	Aorta	Aorta
29	chr6:82544200-82544600	Enhancers	Duodenum Smooth Muscle	Duodenum
30	chr6:82544200-82547600	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links