Variant report

Variant	rs6895664
Chromosome Location	chr5:95535973-95535974
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:56)

rs_ID	r²[population]
rs10463169	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10866766	1.00[CHB][hapmap];0.93[CHD][hapmap];0.96[GIH][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11135447	0.96[ASN][1000 genomes]
rs11135448	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11135449	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11135451	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11742368	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11742915	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11749674	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12519062	0.98[ASN][1000 genomes]
rs12523580	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12652939	0.83[ASN][1000 genomes]
rs12652970	0.83[ASN][1000 genomes]
rs12653663	0.82[ASN][1000 genomes]
rs12659174	0.83[ASN][1000 genomes]
rs13183250	0.98[ASN][1000 genomes]
rs13358858	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs271917	1.00[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap]
rs3922469	0.82[ASN][1000 genomes]
rs4077817	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4267884	1.00[CEU][hapmap];0.89[CHB][hapmap];0.87[GIH][hapmap];0.94[JPT][hapmap]
rs4301244	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4492136	0.83[ASN][1000 genomes]
rs4569897	0.83[ASN][1000 genomes]
rs4626359	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56699153	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs59090200	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59238624	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61618257	0.82[ASN][1000 genomes]
rs6556909	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6862359	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6877002	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6877070	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6877397	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6879773	1.00[CEU][hapmap];0.89[CHB][hapmap];0.82[GIH][hapmap];0.88[JPT][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap]
rs6880865	0.82[ASN][1000 genomes]
rs6883290	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6895145	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6895197	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6895503	0.82[ASN][1000 genomes]
rs73138312	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73138313	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73138318	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73138324	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73138336	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73138348	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73138350	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73138358	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73138366	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73138380	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7447567	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap]
rs7706272	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7731306	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7734553	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7735346	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7735670	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758003	chr5:95231706-95540433	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
2	esv2759355	chr5:95231706-95540433	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
3	esv2757121	chr5:95304236-95539536	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1030444	chr5:95353620-95995619	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
5	nsv537810	chr5:95353620-95995619	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
6	nsv882390	chr5:95486940-95591580	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv830410	chr5:95505799-95666310	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:95523800-95539400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:95530600-95536000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:95532800-95537200	Enhancers	Fetal Intestine Large	intestine
4	chr5:95533000-95555000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr5:95533800-95536600	Enhancers	Fetal Intestine Small	intestine
6	chr5:95534200-95537200	Weak transcription	Aorta	Aorta
7	chr5:95534800-95539800	Weak transcription	NH-A	brain
8	chr5:95535000-95539200	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr5:95535000-95539600	Weak transcription	NHDF-Ad	bronchial
10	chr5:95535200-95537200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr5:95535200-95537400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr5:95535400-95536400	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr5:95535400-95536600	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr5:95535600-95536000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr5:95535600-95536000	Flanking Active TSS	HepG2	liver
16	chr5:95535600-95536800	Enhancers	Adipose Nuclei	Adipose
17	chr5:95535600-95537200	Enhancers	Stomach Mucosa	stomach
18	chr5:95535600-95539200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr5:95535600-95539200	Weak transcription	Osteobl	bone
20	chr5:95535600-95539600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr5:95535800-95536000	Flanking Active TSS	Duodenum Mucosa	Duodenum
22	chr5:95535800-95536000	Enhancers	Pancreas	Pancrea
23	chr5:95535800-95536000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
24	chr5:95535800-95536200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
25	chr5:95535800-95536400	Flanking Active TSS	A549	lung
26	chr5:95535800-95536600	Active TSS	Pancreatic Islets	Pancreatic Islet
27	chr5:95535800-95536600	Enhancers	Sigmoid Colon	Sigmoid Colon
28	chr5:95535800-95536800	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr5:95535800-95537200	Enhancers	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links