Variant report

Variant	rs12700666
Chromosome Location	chr7:25889153-25889154
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs10232819	0.81[ASN][1000 genomes]
rs11976790	0.81[ASN][1000 genomes]
rs12700664	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12700668	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13231733	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1376527	0.81[ASN][1000 genomes]
rs1812673	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs286701	0.85[EUR][1000 genomes]
rs4722531	0.81[ASN][1000 genomes]
rs6461887	0.81[ASN][1000 genomes]
rs6958350	0.81[ASN][1000 genomes]
rs6961848	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7793216	0.81[ASN][1000 genomes]
rs979165	0.81[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	nsv1016813	chr7:25405859-26150509	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases
2	nsv538803	chr7:25405859-26150509	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases
3	nsv830928	chr7:25820147-25965014	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:25882200-25892000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:25883400-25891000	Enhancers	Stomach Smooth Muscle	stomach
3	chr7:25883400-25891200	Enhancers	Fetal Heart	heart
4	chr7:25883800-25892600	Enhancers	Fetal Lung	lung
5	chr7:25884600-25890600	Enhancers	Fetal Stomach	stomach
6	chr7:25884600-25890800	Enhancers	Placenta	Placenta
7	chr7:25884800-25889800	Enhancers	Placenta Amnion	Placenta Amnion
8	chr7:25885200-25890800	Enhancers	Fetal Muscle Leg	muscle
9	chr7:25885400-25890800	Enhancers	Rectal Smooth Muscle	rectum
10	chr7:25885600-25891400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr7:25885800-25891400	Enhancers	Colon Smooth Muscle	Colon
12	chr7:25886600-25891600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr7:25887000-25890200	Weak transcription	Brain Germinal Matrix	brain
14	chr7:25887400-25889200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr7:25887400-25889600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr7:25887600-25890600	Weak transcription	Colonic Mucosa	Colon
17	chr7:25887600-25891200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr7:25887600-25891400	Weak transcription	HMEC	breast
19	chr7:25887800-25889200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr7:25887800-25890400	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr7:25887800-25890800	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr7:25888000-25889200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr7:25888200-25889800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr7:25888200-25889800	Enhancers	Ovary	ovary
25	chr7:25888400-25890400	Enhancers	Fetal Intestine Small	intestine
26	chr7:25888600-25889800	Enhancers	Fetal Kidney	kidney
27	chr7:25888800-25889400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr7:25888800-25889400	Flanking Active TSS	HSMMtube	muscle
29	chr7:25888800-25889800	Flanking Active TSS	HSMM	muscle
30	chr7:25888800-25890200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr7:25888800-25890400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr7:25888800-25890400	Enhancers	Brain Anterior Caudate	brain
33	chr7:25888800-25891600	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr7:25889000-25889200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr7:25889000-25889200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr7:25889000-25889400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr7:25889000-25889400	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr7:25889000-25889400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr7:25889000-25889400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr7:25889000-25889400	Enhancers	Breast Myoepithelial Primary Cells	Breast
41	chr7:25889000-25889400	Flanking Active TSS	Adipose Nuclei	Adipose
42	chr7:25889000-25889400	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
43	chr7:25889000-25889400	Bivalent Enhancer	Duodenum Mucosa	Duodenum
44	chr7:25889000-25889400	Enhancers	Pancreas	Pancrea
45	chr7:25889000-25889400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
46	chr7:25889000-25889400	Flanking Active TSS	NH-A	brain
47	chr7:25889000-25889400	Flanking Active TSS	NHDF-Ad	bronchial
48	chr7:25889000-25889400	Flanking Active TSS	NHLF	lung
49	chr7:25889000-25889600	Enhancers	HUES6 Cell Line	embryonic stem cell
50	chr7:25889000-25889600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links