Variant report

Variant	rs16940976
Chromosome Location	chr15:59315668-59315669
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10518998	0.93[AMR][1000 genomes]
rs11574500	1.00[AMR][1000 genomes]
rs13498	1.00[AMR][1000 genomes]
rs16940958	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16941012	0.83[YRI][hapmap];1.00[AMR][1000 genomes]
rs16941048	1.00[AMR][1000 genomes]
rs16941063	1.00[CHB][hapmap]
rs28383495	0.86[AMR][1000 genomes]
rs28739021	1.00[AMR][1000 genomes]
rs28739025	0.85[AMR][1000 genomes]
rs6494052	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6494058	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6494067	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7164061	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7171252	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7173787	1.00[AMR][1000 genomes]
rs7175697	1.00[AMR][1000 genomes]
rs7177112	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7180666	1.00[AMR][1000 genomes]
rs7181728	0.85[AMR][1000 genomes]
rs74017367	0.87[AMR][1000 genomes]
rs8026039	0.85[AMR][1000 genomes]
rs8027376	0.93[AMR][1000 genomes]
rs8030514	0.85[AMR][1000 genomes]
rs8030811	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8032299	0.85[AMR][1000 genomes]
rs8035952	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8040605	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8041633	1.00[AMR][1000 genomes]
rs8042601	0.85[AFR][1000 genomes];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	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
3	esv1850946	chr15:59174539-59429160	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
4	nsv904271	chr15:59249584-59393011	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv520679	chr15:59268410-59376531	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv520872	chr15:59268410-59395184	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
7	nsv510663	chr15:59310676-59370041	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59280800-59327800	Weak transcription	Small Intestine	intestine
2	chr15:59281200-59352600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr15:59281400-59323200	Weak transcription	Ovary	ovary
4	chr15:59281400-59347800	Weak transcription	Colonic Mucosa	Colon
5	chr15:59281800-59352200	Weak transcription	Aorta	Aorta
6	chr15:59281800-59353400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr15:59282000-59323000	Weak transcription	Fetal Lung	lung
8	chr15:59282000-59323200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr15:59282000-59323200	Weak transcription	Fetal Kidney	kidney
10	chr15:59282400-59323200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr15:59282400-59323400	Weak transcription	NHLF	lung
12	chr15:59283800-59329000	Weak transcription	Pancreas	Pancrea
13	chr15:59283800-59344800	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr15:59283800-59359000	Weak transcription	Fetal Brain Male	brain
15	chr15:59284600-59323000	Weak transcription	Fetal Muscle Trunk	muscle
16	chr15:59284800-59323000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr15:59285000-59323000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:59285000-59328000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr15:59285200-59323000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr15:59285200-59323000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr15:59287400-59319000	Weak transcription	Brain Germinal Matrix	brain
22	chr15:59288400-59351200	Weak transcription	Brain Hippocampus Middle	brain
23	chr15:59292200-59321600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr15:59293800-59317000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr15:59295200-59349200	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr15:59295600-59323000	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr15:59295600-59335400	Weak transcription	Lung	lung
28	chr15:59295800-59323200	Weak transcription	Thymus	Thymus
29	chr15:59297800-59323200	Weak transcription	HepG2	liver
30	chr15:59297800-59323200	Weak transcription	NH-A	brain
31	chr15:59298000-59317000	Weak transcription	Osteobl	bone
32	chr15:59298400-59323000	Weak transcription	NHDF-Ad	bronchial
33	chr15:59298600-59323000	Weak transcription	Duodenum Mucosa	Duodenum
34	chr15:59298600-59323000	Weak transcription	NHEK	skin
35	chr15:59298600-59323200	Weak transcription	Adipose Nuclei	Adipose
36	chr15:59298800-59323000	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr15:59298800-59323200	Weak transcription	HMEC	breast
38	chr15:59300000-59323000	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr15:59300000-59324600	Weak transcription	Right Ventricle	heart
40	chr15:59301200-59335400	Weak transcription	HUVEC	blood vessel
41	chr15:59302200-59321000	Weak transcription	Left Ventricle	heart
42	chr15:59303800-59323200	Weak transcription	Primary neutrophils fromperipheralblood	blood
43	chr15:59304200-59323000	Weak transcription	K562	blood
44	chr15:59304400-59323000	Weak transcription	Psoas Muscle	Psoas
45	chr15:59305400-59323000	Weak transcription	Stomach Smooth Muscle	stomach
46	chr15:59305400-59354400	Weak transcription	Gastric	stomach
47	chr15:59305800-59321400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr15:59306000-59323000	Weak transcription	Hela-S3	cervix
49	chr15:59306000-59353400	Weak transcription	Fetal Heart	heart
50	chr15:59306200-59323000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links