Variant report

Variant	rs9957742
Chromosome Location	chr18:28661575-28661576
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:28660094..28661732-chr18:28665344..28667098,2	K562	blood:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10502559	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs11874411	0.97[EUR][1000 genomes]
rs11874916	0.94[EUR][1000 genomes]
rs11876103	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs11877259	0.94[EUR][1000 genomes]
rs16961206	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs16961326	1.00[CEU][hapmap]
rs16961328	1.00[CEU][hapmap]
rs16961331	1.00[CEU][hapmap]
rs16961333	1.00[CEU][hapmap]
rs2156495	1.00[CEU][hapmap]
rs2156761	1.00[CEU][hapmap]
rs28379393	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6506883	0.94[EUR][1000 genomes]
rs7233226	1.00[CEU][hapmap]
rs7235130	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7244822	1.00[CEU][hapmap]
rs73415516	0.94[EUR][1000 genomes]
rs73954506	0.85[EUR][1000 genomes]
rs8086137	1.00[CEU][hapmap]
rs8086813	0.94[EUR][1000 genomes]
rs985862	1.00[CEU][hapmap]

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	esv3388313	chr18:28583296-28693160	Weak transcription Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530788	chr18:28596461-28751891	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv2244	chr18:28635554-28666380	Strong transcription Weak transcription Genic enhancers Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28640800-28680400	Weak transcription	Right Ventricle	heart
2	chr18:28642200-28666600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr18:28642200-28670800	Weak transcription	Fetal Heart	heart
4	chr18:28642800-28680600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr18:28644400-28671400	Weak transcription	Brain Anterior Caudate	brain
6	chr18:28644800-28673600	Strong transcription	Rectal Mucosa Donor 31	rectum
7	chr18:28645400-28675000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr18:28646800-28673200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr18:28647000-28679400	Weak transcription	Fetal Kidney	kidney
10	chr18:28647200-28667200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr18:28648600-28678800	Weak transcription	Brain Hippocampus Middle	brain
12	chr18:28649000-28668000	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr18:28649200-28680800	Weak transcription	Gastric	stomach
14	chr18:28649400-28679600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr18:28650200-28675800	Weak transcription	Stomach Mucosa	stomach
16	chr18:28651600-28661800	Weak transcription	Placenta	Placenta
17	chr18:28652800-28679800	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr18:28654200-28662400	Weak transcription	Pancreas	Pancrea
19	chr18:28654200-28666400	Weak transcription	K562	blood
20	chr18:28654200-28679800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr18:28654200-28679800	Weak transcription	Lung	lung
22	chr18:28654200-28679800	Weak transcription	Rectal Smooth Muscle	rectum
23	chr18:28654400-28674800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr18:28654800-28666400	Weak transcription	Esophagus	oesophagus
25	chr18:28656400-28663000	Strong transcription	Liver	Liver
26	chr18:28656600-28673600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr18:28656600-28680200	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr18:28657400-28673600	Strong transcription	HUES64 Cell Line	embryonic stem cell
29	chr18:28657400-28679000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr18:28657600-28666400	Weak transcription	Adipose Nuclei	Adipose
31	chr18:28657800-28663200	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr18:28658400-28663200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr18:28658600-28663200	Strong transcription	HUES48 Cell Line	embryonic stem cell
34	chr18:28659000-28663000	Strong transcription	Duodenum Mucosa	Duodenum
35	chr18:28659000-28674200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr18:28659200-28662800	Strong transcription	Primary neutrophils fromperipheralblood	blood
37	chr18:28659400-28662800	Weak transcription	Fetal Muscle Trunk	muscle
38	chr18:28659400-28673600	Strong transcription	Rectal Mucosa Donor 29	rectum
39	chr18:28659600-28662000	Strong transcription	H1 Cell Line	embryonic stem cell
40	chr18:28659600-28663000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr18:28659600-28663200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr18:28659800-28662800	Strong transcription	Fetal Intestine Large	intestine
43	chr18:28659800-28663400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr18:28659800-28663400	Strong transcription	Placenta Amnion	Placenta Amnion
45	chr18:28660000-28662000	Strong transcription	Sigmoid Colon	Sigmoid Colon
46	chr18:28660000-28662800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr18:28660000-28663000	Strong transcription	Colonic Mucosa	Colon
48	chr18:28660000-28663000	Strong transcription	NHEK	skin
49	chr18:28660400-28662000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
50	chr18:28660400-28662000	Strong transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links