Variant report

Variant	rs7300877
Chromosome Location	chr12:56933233-56933234
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11171894	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17540509	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2638297	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2638316	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2657888	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2657890	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2657897	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2657898	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2657899	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2657900	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2657901	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2657902	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2657903	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2657905	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2694907	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2694909	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2694910	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2694912	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2694913	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28697089	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2939308	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2939309	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2939312	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36073309	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4759250	0.81[EUR][1000 genomes]
rs67036743	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7301093	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7309685	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7310284	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73118833	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[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	nsv1043622	chr12:56571476-56974448	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
2	nsv541500	chr12:56571476-56974448	Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	95 gene(s)	inside rSNPs	diseases
3	nsv899106	chr12:56905558-57004668	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:56917000-56958000	Weak transcription	Ovary	ovary
2	chr12:56917200-56956200	Weak transcription	Primary T cells from cord blood	blood
3	chr12:56917200-56959200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr12:56921400-56933400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr12:56921400-56956200	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr12:56922000-56935400	Weak transcription	Fetal Lung	lung
7	chr12:56922400-56956200	Weak transcription	HSMM	muscle
8	chr12:56922400-56959200	Weak transcription	Fetal Kidney	kidney
9	chr12:56923200-56949200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr12:56923800-56938800	Weak transcription	HMEC	breast
11	chr12:56923800-56959400	Weak transcription	Aorta	Aorta
12	chr12:56924400-56934200	Weak transcription	Fetal Muscle Leg	muscle
13	chr12:56924800-56933400	Weak transcription	HUVEC	blood vessel
14	chr12:56924800-56959200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr12:56925000-56959200	Weak transcription	HSMMtube	muscle
16	chr12:56927600-56934200	Weak transcription	Fetal Stomach	stomach
17	chr12:56927600-56946800	Weak transcription	Left Ventricle	heart
18	chr12:56928400-56952400	Weak transcription	Fetal Intestine Large	intestine
19	chr12:56929800-56934600	Weak transcription	Fetal Intestine Small	intestine
20	chr12:56929800-56955600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr12:56930600-56933800	Enhancers	A549	lung
22	chr12:56931000-56937000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr12:56931000-56940800	Weak transcription	Lung	lung
24	chr12:56931000-56949600	Weak transcription	Placenta	Placenta
25	chr12:56931400-56956800	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr12:56931400-56959400	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr12:56931600-56933400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr12:56931600-56934200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr12:56931600-56936000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr12:56931600-56939800	Weak transcription	NHDF-Ad	bronchial
31	chr12:56931600-56946000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr12:56931600-56952400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr12:56931600-56954800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr12:56931600-56955800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr12:56931600-56956200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr12:56931600-56965000	Weak transcription	Hela-S3	cervix
37	chr12:56931800-56934600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr12:56931800-56949200	Weak transcription	Stomach Smooth Muscle	stomach
39	chr12:56931800-56956400	Weak transcription	NHLF	lung
40	chr12:56932200-56933400	Weak transcription	Osteobl	bone
41	chr12:56932200-56934600	Weak transcription	Adipose Nuclei	Adipose
42	chr12:56932200-56959200	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr12:56932400-56939800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr12:56932800-56936000	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr12:56932800-56943400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr12:56933000-56933800	Strong transcription	NHEK	skin
47	chr12:56933000-56934800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
48	chr12:56933000-56935400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr12:56933200-56933600	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr12:56933200-56940400	Weak transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links