Variant report

Variant	rs62004808
Chromosome Location	chr15:40067241-40067242
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1021410	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1021411	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1166722	0.81[EUR][1000 genomes]
rs1166723	0.81[EUR][1000 genomes]
rs11858148	0.83[ASN][1000 genomes]
rs12437837	0.83[ASN][1000 genomes]
rs12440567	0.85[ASN][1000 genomes]
rs12592687	0.81[EUR][1000 genomes]
rs1491624	0.98[ASN][1000 genomes]
rs1565559	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1565561	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1688087	0.81[EUR][1000 genomes]
rs16969789	0.81[ASN][1000 genomes]
rs16969802	0.82[ASN][1000 genomes]
rs1844863	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1906166	0.81[ASN][1000 genomes]
rs2029584	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2171312	0.85[ASN][1000 genomes]
rs2631714	0.80[EUR][1000 genomes]
rs2631717	0.81[ASN][1000 genomes]
rs2638009	0.81[EUR][1000 genomes]
rs28450006	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28538495	0.85[ASN][1000 genomes]
rs28884199	0.85[ASN][1000 genomes]
rs28896916	0.85[ASN][1000 genomes]
rs34320375	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35652496	0.98[ASN][1000 genomes]
rs4924387	0.83[ASN][1000 genomes]
rs4924388	0.85[ASN][1000 genomes]
rs4924389	0.81[EUR][1000 genomes]
rs4924390	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4924391	0.81[EUR][1000 genomes]
rs4924392	0.86[ASN][1000 genomes]
rs55639610	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59434895	0.83[ASN][1000 genomes]
rs60431166	0.83[ASN][1000 genomes]
rs61695850	0.83[ASN][1000 genomes]
rs670748	0.81[EUR][1000 genomes]
rs7179417	0.81[EUR][1000 genomes]
rs7179742	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7179838	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7180846	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8026892	0.82[ASN][1000 genomes]
rs8033485	0.81[EUR][1000 genomes]

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:47 , 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	chr15:40063800-40067800	Weak transcription	Esophagus	oesophagus
5	chr15:40063800-40068800	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr15:40063800-40068800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:40063800-40069000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr15:40063800-40074000	Weak transcription	Brain Angular Gyrus	brain
9	chr15:40064000-40069400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:40064000-40074000	Weak transcription	Brain Anterior Caudate	brain
11	chr15:40064200-40073800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr15:40064400-40069400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr15:40064400-40069600	Weak transcription	HSMMtube	muscle
14	chr15:40064400-40069600	Weak transcription	NH-A	brain
15	chr15:40064400-40069600	Weak transcription	NHDF-Ad	bronchial
16	chr15:40064400-40074200	Weak transcription	Osteobl	bone
17	chr15:40064600-40069400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr15:40064600-40069600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr15:40064600-40070000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr15:40066400-40067400	Enhancers	Primary T cells fromperipheralblood	blood
21	chr15:40066600-40067400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
22	chr15:40066600-40067400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr15:40066600-40067400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr15:40066600-40067600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr15:40066600-40067600	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr15:40066600-40067600	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr15:40066600-40067600	Flanking Active TSS	Dnd41	blood
28	chr15:40066800-40067400	Enhancers	Primary B cells from peripheral blood	blood
29	chr15:40066800-40067400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
30	chr15:40066800-40067400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr15:40066800-40067400	Flanking Active TSS	GM12878-XiMat	blood
32	chr15:40066800-40067400	Enhancers	K562	blood
33	chr15:40066800-40067600	Enhancers	Primary T cells from cord blood	blood
34	chr15:40066800-40068000	Enhancers	Primary monocytes fromperipheralblood	blood
35	chr15:40066800-40068000	Enhancers	Primary T killer memory cells from peripheral blood	blood
36	chr15:40066800-40068000	Enhancers	Fetal Thymus	thymus
37	chr15:40066800-40068200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr15:40066800-40068200	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr15:40066800-40070800	Enhancers	Primary hematopoietic stem cells	blood
40	chr15:40067000-40067400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
41	chr15:40067000-40067400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
42	chr15:40067000-40067400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
43	chr15:40067000-40067600	Enhancers	Primary neutrophils fromperipheralblood	blood
44	chr15:40067200-40067400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
45	chr15:40067200-40067400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr15:40067200-40067600	Enhancers	Primary B cells from cord blood	blood
47	chr15:40067200-40069800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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