Variant report

Variant	rs9296252
Chromosome Location	chr6:38521444-38521445
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10947742	0.92[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10947743	0.83[ASN][1000 genomes]
rs2748156	0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs4141854	0.90[ASW][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.91[MKK][hapmap];0.83[YRI][hapmap];0.91[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4631264	0.90[ASW][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.91[MKK][hapmap];0.81[YRI][hapmap];0.90[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4711553	0.80[LWK][hapmap]
rs6900106	0.86[ASN][1000 genomes]
rs6910904	0.93[CHB][hapmap];0.84[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6924443	0.90[JPT][hapmap]
rs6938737	0.93[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs724242	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7752972	0.90[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs7753374	0.90[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs7761154	0.89[JPT][hapmap]
rs7775968	0.81[LWK][hapmap]
rs9296255	0.81[LWK][hapmap]
rs9357277	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9366965	0.90[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9369065	0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.90[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9394513	0.95[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9394514	0.83[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs9394515	0.90[ASW][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.91[MKK][hapmap];0.84[YRI][hapmap];0.94[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9462439	0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9462441	0.93[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9462442	0.93[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.94[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9470901	0.88[CHD][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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers 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	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38494400-38524200	Weak transcription	Aorta	Aorta
2	chr6:38494800-38522600	Weak transcription	Ovary	ovary
3	chr6:38495000-38521800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr6:38496600-38539600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:38496800-38521600	Weak transcription	Lung	lung
6	chr6:38497000-38538800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr6:38497000-38539400	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr6:38508200-38522200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:38510200-38522200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr6:38510400-38522600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr6:38510600-38546800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:38511600-38522800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:38513000-38522400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr6:38513000-38539200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr6:38514200-38539400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr6:38515600-38535800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr6:38516000-38538800	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr6:38517800-38535000	Weak transcription	Brain Substantia Nigra	brain
19	chr6:38518000-38522200	Weak transcription	HSMMtube	muscle
20	chr6:38519200-38538800	Weak transcription	Primary T cells from cord blood	blood
21	chr6:38519200-38539400	Weak transcription	Left Ventricle	heart
22	chr6:38519600-38554800	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr6:38520200-38521800	Weak transcription	Fetal Heart	heart
24	chr6:38521400-38521600	Enhancers	Right Atrium	heart
25	chr6:38521400-38532000	Weak transcription	Primary B cells from cord blood	blood

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