Variant report

Variant	rs12807220
Chromosome Location	chr11:102077200-102077201
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10895272	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10895273	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10895274	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10895275	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10895276	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10895277	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10895278	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10895280	0.95[ASN][1000 genomes]
rs10895282	0.84[ASN][1000 genomes]
rs11225156	0.81[EUR][1000 genomes]
rs11225160	0.81[EUR][1000 genomes]
rs11225163	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11225165	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11225167	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11225170	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11225174	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11225177	0.96[ASN][1000 genomes]
rs11608234	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12223991	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12226331	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12420287	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12421242	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12786272	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12787996	0.83[EUR][1000 genomes]
rs12790399	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12795624	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17097475	0.81[ASN][1000 genomes]
rs17097547	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17097560	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1820455	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2282652	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3858420	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4475891	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57027482	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58751289	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61280272	0.90[ASN][1000 genomes]
rs7110557	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7112802	0.94[ASN][1000 genomes]
rs7120067	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7122907	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7124247	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs718891	0.95[ASN][1000 genomes]
rs7931576	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7942061	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8504	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3362945	chr11:101736547-102114246	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv898333	chr11:101832670-102079986	Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1052348	chr11:101987090-102255753	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv556141	chr11:101988061-102207851	Weak transcription Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv1050961	chr11:101993880-102253717	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv1051735	chr11:101993880-102255753	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	nsv530646	chr11:102000840-102238992	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
8	nsv832251	chr11:102012295-102181744	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
9	nsv1043388	chr11:102017719-102172857	Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:102043800-102100400	Weak transcription	Pancreas	Pancrea
2	chr11:102048400-102077200	Weak transcription	Lung	lung
3	chr11:102056000-102078400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr11:102059600-102100400	Weak transcription	Gastric	stomach
5	chr11:102062800-102096400	Weak transcription	Small Intestine	intestine
6	chr11:102063800-102096600	Weak transcription	Stomach Mucosa	stomach
7	chr11:102064000-102094400	Weak transcription	Duodenum Mucosa	Duodenum
8	chr11:102064000-102105400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr11:102066800-102077200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr11:102066800-102078400	Weak transcription	A549	lung
11	chr11:102069000-102078400	Weak transcription	Fetal Brain Male	brain
12	chr11:102069000-102080200	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr11:102069000-102088400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr11:102069200-102078400	Weak transcription	Fetal Kidney	kidney
15	chr11:102069200-102080800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr11:102069600-102078400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr11:102071400-102094400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr11:102071600-102079400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr11:102073400-102084200	Strong transcription	Fetal Lung	lung
20	chr11:102073800-102078400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr11:102073800-102078600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr11:102074000-102081000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr11:102074000-102097000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr11:102074000-102104200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr11:102075200-102091400	Weak transcription	Aorta	Aorta
26	chr11:102075400-102105600	Weak transcription	Rectal Smooth Muscle	rectum
27	chr11:102075600-102085000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr11:102075600-102085000	Weak transcription	Fetal Heart	heart
29	chr11:102075800-102079600	Weak transcription	Colon Smooth Muscle	Colon
30	chr11:102076000-102080000	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr11:102076000-102081200	Strong transcription	NHLF	lung
32	chr11:102076200-102081600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr11:102076200-102084600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr11:102076200-102085200	Strong transcription	HSMM	muscle
35	chr11:102076200-102091000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr11:102076200-102102200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr11:102076400-102081200	Strong transcription	NHEK	skin
38	chr11:102076400-102083200	Strong transcription	Hela-S3	cervix
39	chr11:102076400-102083800	Strong transcription	HepG2	liver
40	chr11:102076400-102086600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr11:102076600-102077200	Genic enhancers	H1 Cell Line	embryonic stem cell
42	chr11:102076600-102077200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr11:102076600-102077200	Strong transcription	Sigmoid Colon	Sigmoid Colon
44	chr11:102076600-102077200	Strong transcription	Skeletal Muscle Male	skeletal muscle
45	chr11:102076600-102077600	Strong transcription	Stomach Smooth Muscle	stomach
46	chr11:102076600-102078400	Strong transcription	Fetal Intestine Small	intestine
47	chr11:102076600-102078600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr11:102076600-102078800	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr11:102076600-102078800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr11:102076600-102079000	Strong transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links