Variant report

Variant	rs9739381
Chromosome Location	chr12:122436206-122436207
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	chr12:122435633..122438414-chr12:122458889..122461099,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000110987	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10840630	1.00[ASN][1000 genomes]
rs10840631	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840632	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840633	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840637	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10840640	0.86[AMR][1000 genomes]
rs11043225	1.00[ASN][1000 genomes]
rs11043233	1.00[ASN][1000 genomes]
rs11043243	0.81[AMR][1000 genomes]
rs11043244	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11043246	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11043251	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11043271	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11043278	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11043280	0.99[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11043288	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11043294	0.81[AMR][1000 genomes]
rs1154514	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11612028	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1169070	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1169071	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12369331	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12809676	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12822775	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12823194	1.00[ASN][1000 genomes]
rs12824593	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12825161	1.00[ASN][1000 genomes]
rs12830351	0.81[AMR][1000 genomes]
rs1720033	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1720037	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2167067	1.00[ASN][1000 genomes]
rs34159444	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34906460	1.00[ASN][1000 genomes]
rs35244551	0.82[AMR][1000 genomes]
rs66751701	1.00[ASN][1000 genomes]
rs7132055	1.00[ASN][1000 genomes]
rs7298990	0.81[AMR][1000 genomes]
rs73217776	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
4	esv34001	chr12:122298737-122521637	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9739381	BCL7A	cis	Muscle Skeletal	GTEx

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:122396600-122439200	Weak transcription	Brain Anterior Caudate	brain
2	chr12:122418800-122437600	Weak transcription	Spleen	Spleen
3	chr12:122422800-122442600	Weak transcription	Fetal Kidney	kidney
4	chr12:122430400-122441000	Weak transcription	HSMMtube	muscle
5	chr12:122430400-122441600	Weak transcription	Primary T cells from cord blood	blood
6	chr12:122430800-122438800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr12:122431000-122442000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr12:122433200-122438600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr12:122435000-122440600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr12:122435200-122437800	Weak transcription	NHLF	lung
11	chr12:122435200-122438800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr12:122435200-122439000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr12:122435200-122439200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr12:122435200-122439400	Weak transcription	Brain Hippocampus Middle	brain
15	chr12:122435200-122441200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr12:122435200-122441600	Weak transcription	Osteobl	bone
17	chr12:122435200-122442400	Weak transcription	Pancreas	Pancrea
18	chr12:122435400-122436800	Weak transcription	NHEK	skin
19	chr12:122435400-122437400	Weak transcription	Thymus	Thymus
20	chr12:122435400-122438800	Weak transcription	HMEC	breast
21	chr12:122435400-122440600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr12:122435400-122441800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr12:122435800-122441000	Weak transcription	Primary B cells from cord blood	blood
24	chr12:122436000-122437000	Weak transcription	Primary B cells from peripheral blood	blood
25	chr12:122436000-122439400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links