Variant report

Variant	rs2638009
Chromosome Location	chr15:40066221-40066222
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1021410	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs1021411	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs1166716	1.00[CEU][hapmap]
rs1166718	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1166722	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1166723	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12592687	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1565559	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs1565561	0.88[CEU][hapmap]
rs1688087	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1844863	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs1906163	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs1906164	0.88[CEU][hapmap]
rs2029584	0.85[CEU][hapmap]
rs2576929	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2576932	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2576933	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2631714	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28450006	0.83[EUR][1000 genomes]
rs34320375	0.82[EUR][1000 genomes]
rs34943556	0.90[ASN][1000 genomes]
rs4115216	0.96[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs4924385	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4924389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4924391	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs592172	0.92[ASN][1000 genomes]
rs594863	0.82[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs606927	0.96[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs62004808	0.81[EUR][1000 genomes]
rs620407	0.83[CHB][hapmap];0.87[JPT][hapmap];0.86[ASN][1000 genomes]
rs6492914	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.80[YRI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6492915	0.87[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs6492919	0.96[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs66496275	0.90[ASN][1000 genomes]
rs670748	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7165244	0.82[JPT][hapmap];0.80[ASN][1000 genomes]
rs7179417	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7179742	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs7179838	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs7180846	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs8031241	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8033485	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8033957	0.87[CHB][hapmap];0.82[JPT][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	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv832979	chr15:40041928-40218407	Genic enhancers Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 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	chr15:40053400-40069400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr15:40054400-40069400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr15:40059400-40074400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr15:40063200-40066600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr15:40063800-40066600	Weak transcription	GM12878-XiMat	blood
6	chr15:40063800-40067800	Weak transcription	Esophagus	oesophagus
7	chr15:40063800-40068800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr15:40063800-40068800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr15:40063800-40069000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr15:40063800-40074000	Weak transcription	Brain Angular Gyrus	brain
11	chr15:40064000-40066800	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr15:40064000-40069400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:40064000-40074000	Weak transcription	Brain Anterior Caudate	brain
14	chr15:40064200-40073800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr15:40064400-40066600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr15:40064400-40066600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:40064400-40067000	Weak transcription	Lung	lung
18	chr15:40064400-40069400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr15:40064400-40069600	Weak transcription	HSMMtube	muscle
20	chr15:40064400-40069600	Weak transcription	NH-A	brain
21	chr15:40064400-40069600	Weak transcription	NHDF-Ad	bronchial
22	chr15:40064400-40074200	Weak transcription	Osteobl	bone
23	chr15:40064600-40069400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr15:40064600-40069600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr15:40064600-40070000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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