Variant report

Variant	rs1555522
Chromosome Location	chr9:101568098-101568099
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10119228	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10125255	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10739704	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10987230	1.00[CEU][hapmap]
rs10987234	1.00[CEU][hapmap]
rs10987293	1.00[CEU][hapmap]
rs10987843	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1167771	1.00[CEU][hapmap]
rs1555520	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs180038	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs180039	0.90[ASN][1000 genomes]
rs182877	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1930130	1.00[CEU][hapmap]
rs2058881	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2295922	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2778916	1.00[CEU][hapmap]
rs2778919	1.00[CEU][hapmap]
rs2779539	1.00[CEU][hapmap]
rs337527	1.00[CEU][hapmap]
rs337564	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337566	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337567	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337568	0.89[CHB][hapmap];0.84[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337570	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs337571	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs337580	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.90[ASN][1000 genomes]
rs337583	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs337585	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337588	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs337589	0.90[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs337590	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs371521	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4133240	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4133831	0.82[EUR][1000 genomes]
rs429562	0.82[EUR][1000 genomes]
rs439347	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs453409	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4742740	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4742742	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743274	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4743277	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743279	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4743280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs48418	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs507318	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6415847	0.90[CHB][hapmap];0.84[JPT][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6415849	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs692824	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7029599	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7039118	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs754222	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7846846	0.93[ASN][1000 genomes]
rs7861840	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7867234	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7867317	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9409306	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs967932	1.00[CEU][hapmap]

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	nsv614936	chr9:101182698-101680380	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv893614	chr9:101340316-101671634	Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv893615	chr9:101356515-101678036	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101559600-101569000	Weak transcription	Pancreas	Pancrea
2	chr9:101559600-101569600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr9:101562600-101569400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:101565400-101569000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:101566200-101569200	Weak transcription	Fetal Stomach	stomach
6	chr9:101567200-101568800	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr9:101567400-101568200	Active TSS	Rectal Mucosa Donor 29	rectum
8	chr9:101567400-101569200	Weak transcription	Fetal Lung	lung
9	chr9:101567400-101569400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr9:101567400-101569400	Enhancers	Fetal Intestine Small	intestine
11	chr9:101567400-101569400	Enhancers	K562	blood
12	chr9:101567400-101569600	Enhancers	HMEC	breast
13	chr9:101567600-101568200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr9:101567600-101568600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
15	chr9:101567600-101568600	Enhancers	Sigmoid Colon	Sigmoid Colon
16	chr9:101567600-101569200	Enhancers	Colonic Mucosa	Colon
17	chr9:101567600-101569400	Enhancers	Duodenum Mucosa	Duodenum
18	chr9:101567600-101569400	Enhancers	Esophagus	oesophagus
19	chr9:101567600-101569400	Enhancers	Fetal Intestine Large	intestine
20	chr9:101567600-101569600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr9:101567600-101569600	Enhancers	Gastric	stomach
22	chr9:101567600-101569600	Enhancers	NHEK	skin
23	chr9:101567600-101570000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr9:101567800-101568200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr9:101567800-101568200	Weak transcription	Colon Smooth Muscle	Colon
26	chr9:101567800-101568200	Active TSS	Rectal Smooth Muscle	rectum
27	chr9:101567800-101568600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr9:101567800-101568600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
29	chr9:101567800-101568800	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr9:101567800-101569000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr9:101567800-101569400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr9:101567800-101569400	Weak transcription	Right Ventricle	heart
33	chr9:101567800-101569400	Enhancers	Stomach Mucosa	stomach
34	chr9:101567800-101569800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr9:101567800-101569800	Flanking Active TSS	Stomach Smooth Muscle	stomach
36	chr9:101568000-101569200	Weak transcription	Spleen	Spleen
37	chr9:101568000-101569400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links