Variant report

Variant	rs16958509
Chromosome Location	chr18:45362796-45362797
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:45356981..45361316-chr18:45361915..45364794,4	K562	blood:
2	chr18:45356981..45360648-chr18:45361915..45364207,3	K562	blood:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10502889	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs16958575	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs16958579	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes]
rs16958590	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs16958602	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs16958610	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs16958629	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3813069	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs4939632	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4939972	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs58137461	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8085335	1.00[CHB][hapmap];0.93[JPT][hapmap];0.99[ASN][1000 genomes]
rs8086227	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8098413	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9304357	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[ASN][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	nsv1057722	chr18:45343965-45401360	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv1058673	chr18:45360012-45404492	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv1059186	chr18:45360012-45407405	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:45335400-45365600	Weak transcription	Gastric	stomach
2	chr18:45340400-45369400	Weak transcription	Fetal Stomach	stomach
3	chr18:45341000-45364200	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr18:45342200-45384200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr18:45342400-45365400	Weak transcription	Psoas Muscle	Psoas
6	chr18:45344000-45373000	Weak transcription	Pancreas	Pancrea
7	chr18:45344200-45364800	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr18:45344200-45364800	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr18:45344400-45365400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr18:45344400-45365600	Weak transcription	Stomach Smooth Muscle	stomach
11	chr18:45344600-45365400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr18:45344600-45368000	Weak transcription	Rectal Smooth Muscle	rectum
13	chr18:45345000-45368000	Weak transcription	Colon Smooth Muscle	Colon
14	chr18:45345200-45365400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr18:45345400-45363400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr18:45345400-45400200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr18:45346400-45365600	Weak transcription	Esophagus	oesophagus
18	chr18:45347600-45381800	Weak transcription	Right Ventricle	heart
19	chr18:45348200-45366200	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr18:45348400-45365600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr18:45348400-45365600	Weak transcription	NHEK	skin
22	chr18:45349800-45365600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr18:45350000-45364000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr18:45350000-45365400	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr18:45350200-45363000	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr18:45350400-45364000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr18:45350800-45365000	Weak transcription	Brain Hippocampus Middle	brain
28	chr18:45350800-45365600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr18:45350800-45367600	Weak transcription	K562	blood
30	chr18:45351000-45365600	Weak transcription	Brain Substantia Nigra	brain
31	chr18:45351000-45374600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr18:45351600-45365800	Weak transcription	Brain Anterior Caudate	brain
33	chr18:45351800-45367800	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr18:45352000-45364600	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr18:45352000-45365400	Weak transcription	Lung	lung
36	chr18:45352400-45365400	Weak transcription	Left Ventricle	heart
37	chr18:45352400-45365600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr18:45352800-45365000	Weak transcription	Fetal Muscle Trunk	muscle
39	chr18:45353000-45363000	Weak transcription	Fetal Lung	lung
40	chr18:45353000-45381200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr18:45353200-45365600	Weak transcription	Fetal Brain Female	brain
42	chr18:45353200-45365600	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr18:45353800-45365400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr18:45354000-45364200	Weak transcription	Primary B cells from peripheral blood	blood
45	chr18:45354200-45365000	Weak transcription	Thymus	Thymus
46	chr18:45354200-45365400	Weak transcription	NH-A	brain
47	chr18:45354600-45365600	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr18:45354600-45381800	Weak transcription	Fetal Intestine Small	intestine
49	chr18:45354800-45365600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr18:45354800-45370800	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links