Variant report

Variant	rs28673794
Chromosome Location	chr16:69888285-69888286
allele	C/T
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:40)

rs_ID	r²[population]
rs13329778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13329812	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13330995	1.00[AMR][1000 genomes]
rs13332544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13332880	1.00[AMR][1000 genomes]
rs13336041	1.00[AMR][1000 genomes]
rs13336357	1.00[AMR][1000 genomes]
rs13338911	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13339493	1.00[AMR][1000 genomes]
rs28402794	1.00[AMR][1000 genomes]
rs28429826	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28502677	1.00[AMR][1000 genomes]
rs28514573	1.00[AMR][1000 genomes]
rs28523536	1.00[AMR][1000 genomes]
rs28576892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28583989	1.00[AMR][1000 genomes]
rs28610117	1.00[AMR][1000 genomes]
rs28628240	1.00[AMR][1000 genomes]
rs28651196	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28756357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28803823	1.00[AMR][1000 genomes]
rs28867427	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28882509	1.00[AMR][1000 genomes]
rs9923096	1.00[AMR][1000 genomes]
rs9923471	1.00[AMR][1000 genomes]
rs9924073	1.00[AMR][1000 genomes]
rs9924630	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9926382	1.00[AMR][1000 genomes]
rs9928560	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9930692	1.00[AMR][1000 genomes]
rs9931243	1.00[AFR][1000 genomes]
rs9931479	1.00[AMR][1000 genomes]
rs9933583	1.00[AMR][1000 genomes]
rs9933606	1.00[AMR][1000 genomes]
rs9933745	1.00[AMR][1000 genomes]
rs9935697	1.00[AMR][1000 genomes]
rs9935973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9936451	1.00[AMR][1000 genomes]
rs9937762	1.00[AMR][1000 genomes]
rs9938552	1.00[AMR][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:98 , 50 per page) page: 1 2

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	chr16:69867000-69888400	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr16:69868000-69888800	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr16:69868200-69892800	Weak transcription	A549	lung
8	chr16:69868800-69888400	Strong transcription	Primary monocytes fromperipheralblood	blood
9	chr16:69874000-69905800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr16:69874200-69889400	Weak transcription	Right Ventricle	heart
11	chr16:69875200-69890600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr16:69875800-69888800	Strong transcription	Fetal Intestine Small	intestine
13	chr16:69876000-69895000	Weak transcription	Fetal Brain Female	brain
14	chr16:69876000-69904400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr16:69876000-69905800	Weak transcription	Dnd41	blood
16	chr16:69876200-69905800	Weak transcription	Brain Germinal Matrix	brain
17	chr16:69877000-69892400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr16:69877200-69892400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr16:69877600-69892200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr16:69879400-69891600	Weak transcription	Thymus	Thymus
21	chr16:69879600-69892200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr16:69879800-69892200	Weak transcription	Liver	Liver
23	chr16:69879800-69892200	Weak transcription	Fetal Thymus	thymus
24	chr16:69879800-69895000	Weak transcription	Primary hematopoietic stem cells	blood
25	chr16:69880400-69892200	Weak transcription	Hela-S3	cervix
26	chr16:69881600-69890200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr16:69882800-69894800	Weak transcription	Colonic Mucosa	Colon
28	chr16:69883000-69893200	Weak transcription	Psoas Muscle	Psoas
29	chr16:69883000-69899400	Weak transcription	NHLF	lung
30	chr16:69883200-69892600	Weak transcription	NHEK	skin
31	chr16:69883200-69893200	Weak transcription	Fetal Muscle Trunk	muscle
32	chr16:69883200-69894400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr16:69883400-69892000	Weak transcription	Placenta	Placenta
34	chr16:69883400-69892400	Weak transcription	HSMM	muscle
35	chr16:69883400-69894800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr16:69883400-69899600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr16:69883400-69903800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr16:69883600-69889000	Weak transcription	HUVEC	blood vessel
39	chr16:69883600-69889200	Weak transcription	NHDF-Ad	bronchial
40	chr16:69883600-69891600	Weak transcription	Pancreas	Pancrea
41	chr16:69883600-69892200	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr16:69883600-69892800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr16:69883600-69904400	Weak transcription	HMEC	breast
44	chr16:69883800-69889200	Weak transcription	Left Ventricle	heart
45	chr16:69883800-69892800	Weak transcription	Fetal Muscle Leg	muscle
46	chr16:69883800-69892800	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr16:69883800-69895200	Weak transcription	HSMMtube	muscle
48	chr16:69884000-69892400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr16:69884400-69888400	Strong transcription	Primary T cells from cord blood	blood
50	chr16:69884600-69892200	Weak transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links