Variant report

Variant	rs13362287
Chromosome Location	chr5:80944906-80944907
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10053226	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10054360	0.90[EUR][1000 genomes]
rs10059425	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10060208	0.81[EUR][1000 genomes]
rs10062494	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10064938	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10074416	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10074423	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10078696	0.85[GIH][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10473850	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10474035	1.00[TSI][hapmap];0.90[EUR][1000 genomes]
rs10514221	0.81[EUR][1000 genomes]
rs1058210	1.00[CHB][hapmap]
rs10942277	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10942278	1.00[ASW][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10942279	1.00[GIH][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13354281	0.81[EUR][1000 genomes]
rs13359852	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13360410	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13360536	1.00[GIH][hapmap];0.85[LWK][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1373965	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16898989	0.90[EUR][1000 genomes]
rs16899116	0.88[TSI][hapmap]
rs28546170	0.90[EUR][1000 genomes]
rs28825230	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55792529	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57587453	0.82[EUR][1000 genomes]
rs57778735	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58050716	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58238009	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58652756	0.90[EUR][1000 genomes]
rs58937248	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59261412	1.00[ASN][1000 genomes]
rs6452422	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6872195	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6882480	0.88[TSI][hapmap]
rs6887447	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6897373	0.85[GIH][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs6897943	0.93[ASW][hapmap];0.92[LWK][hapmap];0.87[MKK][hapmap];0.86[AFR][1000 genomes]
rs73135635	0.90[EUR][1000 genomes]
rs73135645	0.98[AFR][1000 genomes]
rs73135661	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73137634	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73137639	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73137662	1.00[ASN][1000 genomes]
rs7707946	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7710001	0.83[GIH][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7710903	0.84[EUR][1000 genomes]
rs7714997	0.81[AFR][1000 genomes]
rs7729317	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7736720	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9293277	0.85[GIH][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882233	chr5:80849084-81049187	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv882234	chr5:80853708-80966666	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv525437	chr5:80876359-80964452	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv462222	chr5:80900719-80964452	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv598752	chr5:80900719-80964452	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv882235	chr5:80909132-81006061	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv830361	chr5:80909811-81080409	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv882236	chr5:80930992-80999768	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv527374	chr5:80938095-80964452	Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv882237	chr5:80938489-81006061	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:80906000-80946600	Weak transcription	Brain Anterior Caudate	brain
2	chr5:80906000-80947000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:80906200-80947800	Weak transcription	Brain Germinal Matrix	brain
4	chr5:80910400-80953000	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr5:80910800-80949200	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr5:80920600-80946800	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr5:80921200-80983000	Weak transcription	Aorta	Aorta
8	chr5:80923000-80952800	Weak transcription	Fetal Intestine Large	intestine
9	chr5:80923200-80947000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr5:80923200-80948400	Weak transcription	K562	blood
11	chr5:80924200-80962800	Weak transcription	Ovary	ovary
12	chr5:80924800-80972000	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr5:80926200-80947000	Weak transcription	Fetal Brain Male	brain
14	chr5:80930400-80947400	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr5:80930800-80945000	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr5:80930800-80953400	Weak transcription	Right Ventricle	heart
17	chr5:80931000-80952800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr5:80932200-80952000	Weak transcription	Fetal Muscle Trunk	muscle
19	chr5:80932200-80952200	Weak transcription	Fetal Muscle Leg	muscle
20	chr5:80932200-80952800	Weak transcription	Adipose Nuclei	Adipose
21	chr5:80932400-80963000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr5:80932800-80947400	Weak transcription	Primary T cells from cord blood	blood
23	chr5:80935000-80945600	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr5:80935400-80949400	Weak transcription	HSMMtube	muscle
25	chr5:80935600-80947600	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr5:80935800-80946800	Weak transcription	HSMM	muscle
27	chr5:80935800-80951800	Weak transcription	NHDF-Ad	bronchial
28	chr5:80936000-80951600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr5:80938200-80946600	Weak transcription	Colon Smooth Muscle	Colon
30	chr5:80938600-80945800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr5:80938800-80965200	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr5:80939200-80947600	Weak transcription	Left Ventricle	heart
33	chr5:80939200-80952800	Weak transcription	Lung	lung
34	chr5:80939200-80962400	Weak transcription	Fetal Stomach	stomach
35	chr5:80939600-80946200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr5:80939800-80946200	Strong transcription	Fetal Thymus	thymus
37	chr5:80940200-80945600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr5:80940400-80945000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr5:80940600-80955600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr5:80940800-80945000	Weak transcription	Fetal Lung	lung
41	chr5:80941800-80945600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr5:80941800-80945800	Strong transcription	Primary hematopoietic stem cells	blood
43	chr5:80942600-80945600	Strong transcription	Primary B cells from peripheral blood	blood
44	chr5:80942800-80953400	Weak transcription	Fetal Intestine Small	intestine
45	chr5:80942800-80962800	Weak transcription	Right Atrium	heart
46	chr5:80943000-80945000	Weak transcription	GM12878-XiMat	blood
47	chr5:80943200-80946200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr5:80943400-80945600	Strong transcription	Fetal Kidney	kidney
49	chr5:80943800-80947000	Strong transcription	Dnd41	blood
50	chr5:80944200-80945600	Strong transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links