Variant report

Variant	rs2707072
Chromosome Location	chr12:122295344-122295345
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:122240928..122242947-chr12:122294701..122297543,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000139725	Chromatin interaction
ENSG00000139718	Chromatin interaction
ENSG00000212694	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10840628	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10840629	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11043224	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11043236	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1678964	0.96[EUR][1000 genomes]
rs2596140	1.00[YRI][hapmap]
rs2596143	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2620335	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3741586	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs4544045	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61093646	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7962746	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7978403	0.90[EUR][1000 genomes]
rs7979818	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529868	chr12:121956483-122944265	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
2	nsv916686	chr12:122240149-122714056	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
3	nsv899568	chr12:122254713-122456524	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:122278200-122296400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr12:122278400-122295400	Weak transcription	Fetal Intestine Small	intestine
3	chr12:122291200-122295400	Weak transcription	Pancreas	Pancrea
4	chr12:122292000-122296400	Weak transcription	Right Atrium	heart
5	chr12:122292200-122296400	Weak transcription	Colonic Mucosa	Colon
6	chr12:122292600-122296000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr12:122292600-122296000	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr12:122292800-122295400	Enhancers	Primary B cells from peripheral blood	blood
9	chr12:122292800-122296400	Weak transcription	Right Ventricle	heart
10	chr12:122292800-122296800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr12:122294000-122295600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr12:122294000-122296000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr12:122294000-122298600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr12:122294200-122297600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr12:122294200-122297800	Weak transcription	Primary B cells from cord blood	blood
16	chr12:122294200-122299000	Enhancers	A549	lung
17	chr12:122294400-122295600	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr12:122294400-122296400	Weak transcription	Spleen	Spleen
19	chr12:122294600-122297800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr12:122294800-122298800	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr12:122295000-122295400	Enhancers	HepG2	liver
22	chr12:122295000-122296000	Flanking Active TSS	Liver	Liver
23	chr12:122295200-122296000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr12:122295200-122298600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links