Variant report

Variant	rs9888981
Chromosome Location	chr16:69882655-69882656
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10400956	0.88[ASN][1000 genomes]
rs10517	0.80[CHB][hapmap]
rs11075736	0.81[ASN][1000 genomes]
rs11862697	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12019048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12149920	0.85[ASN][1000 genomes]
rs1318651	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16959059	1.00[CEU][hapmap]
rs16959266	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16959271	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16959272	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2088747	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2291960	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2917667	1.00[CEU][hapmap]
rs2917669	1.00[CEU][hapmap]
rs2917681	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs2917682	0.88[CEU][hapmap]
rs2917683	0.88[CEU][hapmap]
rs2937120	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2937123	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2937126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2937127	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2965753	1.00[CEU][hapmap]
rs2965756	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2965759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2965760	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2965761	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2965762	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2965763	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2965764	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3790084	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3790087	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3790088	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3826154	0.87[CEU][hapmap]
rs4247107	0.80[ASN][1000 genomes]
rs4247109	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4442796	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4608327	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4619391	0.86[ASN][1000 genomes]
rs4985527	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs4985529	0.86[ASN][1000 genomes]
rs4985531	0.87[ASN][1000 genomes]
rs61090597	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6499249	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6499259	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs689452	1.00[CEU][hapmap]
rs7188187	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7204615	0.81[ASN][1000 genomes]
rs7359387	0.88[CEU][hapmap]
rs8050369	0.86[ASN][1000 genomes]
rs8057938	1.00[CEU][hapmap];0.81[ASN][1000 genomes]
rs8058594	0.86[ASN][1000 genomes]
rs8062076	0.88[ASN][1000 genomes]
rs9888980	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9922223	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9927105	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9932486	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9937018	0.81[CHB][hapmap]
rs9940008	1.00[CEU][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[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	nsv906823	chr16:69711533-69959223	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
2	nsv1062171	chr16:69854267-70188585	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv542941	chr16:69854267-70188585	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
4	nsv1059249	chr16:69854467-70188446	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
5	nsv542942	chr16:69854467-70188446	Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
6	esv2758428	chr16:69855122-70313222	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
7	esv2758652	chr16:69855122-70313222	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:69834000-69910600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr16:69834200-69892200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr16:69837000-69905600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr16:69852000-69893200	Weak transcription	K562	blood
5	chr16:69865000-69887200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr16:69867000-69888400	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr16:69868000-69885000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr16:69868000-69888800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr16:69868200-69884800	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr16:69868200-69885400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr16:69868200-69892800	Weak transcription	A549	lung
12	chr16:69868800-69888400	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr16:69871200-69884600	Strong transcription	Primary T cells fromperipheralblood	blood
14	chr16:69871200-69885000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr16:69871400-69883200	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr16:69871600-69882800	Strong transcription	Primary T cells from cord blood	blood
17	chr16:69873400-69888000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr16:69874000-69883000	Weak transcription	HMEC	breast
19	chr16:69874000-69905800	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr16:69874200-69889400	Weak transcription	Right Ventricle	heart
21	chr16:69874800-69887200	Weak transcription	Aorta	Aorta
22	chr16:69875200-69890600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr16:69875800-69886000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr16:69875800-69888800	Strong transcription	Fetal Intestine Small	intestine
25	chr16:69876000-69895000	Weak transcription	Fetal Brain Female	brain
26	chr16:69876000-69904400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr16:69876000-69905800	Weak transcription	Dnd41	blood
28	chr16:69876200-69885800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr16:69876200-69905800	Weak transcription	Brain Germinal Matrix	brain
30	chr16:69877000-69892400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr16:69877200-69892400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr16:69877600-69892200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr16:69878800-69884400	Weak transcription	Primary T helper cells PMA-I stimulated	--
34	chr16:69879400-69883000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr16:69879400-69885400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr16:69879400-69891600	Weak transcription	Thymus	Thymus
37	chr16:69879600-69882800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr16:69879600-69882800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr16:69879600-69882800	Weak transcription	Fetal Intestine Large	intestine
40	chr16:69879600-69883000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr16:69879600-69883000	Weak transcription	Placenta	Placenta
42	chr16:69879600-69886600	Weak transcription	Primary B cells from cord blood	blood
43	chr16:69879600-69887000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr16:69879600-69887200	Weak transcription	Esophagus	oesophagus
45	chr16:69879600-69887400	Weak transcription	GM12878-XiMat	blood
46	chr16:69879600-69887600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr16:69879600-69892200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr16:69879800-69892200	Weak transcription	Liver	Liver
49	chr16:69879800-69892200	Weak transcription	Fetal Thymus	thymus
50	chr16:69879800-69895000	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links