Variant report

Variant	rs7956766
Chromosome Location	chr12:44277073-44277074
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:44170013..44170913-chr12:44276071..44277312,10	MCF-7	breast:
2	chr12:44228150..44229800-chr12:44275974..44278416,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000139173	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10506233	1.00[CHB][hapmap]
rs11182312	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11182317	0.82[AFR][1000 genomes]
rs11182363	1.00[CHB][hapmap]
rs11182371	1.00[CHB][hapmap]
rs11182376	1.00[CHB][hapmap]
rs11182389	1.00[CHB][hapmap]
rs11182410	1.00[CHB][hapmap]
rs12296939	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs12297529	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]
rs12297544	1.00[CEU][hapmap]
rs12299112	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12299151	1.00[EUR][1000 genomes]
rs12303163	1.00[CHB][hapmap]
rs12307180	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12307644	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12310801	1.00[CHB][hapmap]
rs12315211	1.00[CEU][hapmap]
rs12319776	1.00[CHB][hapmap]
rs12320155	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs12320752	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12321149	1.00[CHB][hapmap]
rs1388775	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs1406786	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1675759	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1731422	0.83[ASW][hapmap];0.82[YRI][hapmap]
rs1731424	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7133336	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7307888	1.00[CEU][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7957146	1.00[CEU][hapmap]
rs7969724	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9971859	1.00[CEU][hapmap]
rs9971895	1.00[CEU][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	nsv933142	chr12:44130156-44278300	Active TSS Flanking Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv899048	chr12:44209423-44307888	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:44240400-44293000	Weak transcription	Aorta	Aorta
2	chr12:44256400-44285600	Weak transcription	HSMMtube	muscle
3	chr12:44263800-44277600	Weak transcription	Left Ventricle	heart
4	chr12:44273800-44278400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr12:44274400-44277200	Weak transcription	HSMM	muscle
6	chr12:44274600-44278600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr12:44274600-44286000	Weak transcription	Pancreas	Pancrea
8	chr12:44275000-44278400	Weak transcription	Colon Smooth Muscle	Colon
9	chr12:44275000-44281200	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr12:44275200-44277800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr12:44276600-44278600	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr12:44276800-44278400	Weak transcription	Brain Anterior Caudate	brain
13	chr12:44276800-44278600	Enhancers	Osteobl	bone
14	chr12:44277000-44277400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr12:44277000-44278600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr12:44277000-44279600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links