Variant report

Variant	rs11876773
Chromosome Location	chr18:29937076-29937077
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	chr18:29936796..29939619-chr18:29941800..29943870,3	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10502592	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11665147	0.81[CEU][hapmap]
rs11665150	0.81[CEU][hapmap]
rs11665190	0.81[CEU][hapmap]
rs16963205	0.82[MKK][hapmap]
rs16963285	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963289	0.81[CEU][hapmap]
rs1824304	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs2034968	0.81[CEU][hapmap]
rs41527551	0.81[CEU][hapmap]
rs59456493	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs616601	0.88[CHB][hapmap]
rs618004	0.88[CHB][hapmap]
rs625361	0.88[CHB][hapmap]
rs638142	0.88[CHB][hapmap]
rs656946	0.88[CHB][hapmap]
rs657479	0.88[CHB][hapmap]
rs668857	0.88[CHB][hapmap]
rs681347	0.88[CHB][hapmap]
rs7230250	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs736218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73958410	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8097263	0.81[CEU][hapmap]
rs968099	0.90[CEU][hapmap];0.86[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833616	chr18:29792336-29964212	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29921600-29938200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:29926800-29951000	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr18:29927800-29938200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr18:29930000-29938200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr18:29930000-29938400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr18:29930000-29939600	Weak transcription	Fetal Stomach	stomach
7	chr18:29930000-29947600	Weak transcription	Esophagus	oesophagus
8	chr18:29930200-29945400	Weak transcription	Fetal Intestine Small	intestine
9	chr18:29930200-29945600	Weak transcription	Fetal Intestine Large	intestine
10	chr18:29930200-29953600	Weak transcription	Fetal Muscle Leg	muscle
11	chr18:29931200-29948000	Weak transcription	Brain Angular Gyrus	brain
12	chr18:29931400-29940400	Weak transcription	Brain Substantia Nigra	brain
13	chr18:29931600-29937400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr18:29931600-29942000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr18:29932600-29943600	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr18:29932800-29938200	Weak transcription	Gastric	stomach
17	chr18:29932800-29954000	Weak transcription	Ovary	ovary
18	chr18:29933000-29948000	Weak transcription	Brain Hippocampus Middle	brain
19	chr18:29933600-29939400	Weak transcription	Stomach Mucosa	stomach
20	chr18:29934200-29937200	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr18:29934800-29938000	Weak transcription	Stomach Smooth Muscle	stomach
22	chr18:29934800-29945600	Weak transcription	Aorta	Aorta
23	chr18:29935400-29938000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr18:29935600-29939800	Enhancers	Fetal Heart	heart
25	chr18:29936000-29937400	Weak transcription	Rectal Smooth Muscle	rectum
26	chr18:29936200-29937400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr18:29936200-29942000	Weak transcription	HSMM	muscle
28	chr18:29936400-29940600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr18:29936400-29942000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr18:29936600-29937800	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr18:29936800-29937600	Enhancers	Psoas Muscle	Psoas
32	chr18:29936800-29938200	Weak transcription	Brain Anterior Caudate	brain
33	chr18:29936800-29938400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr18:29936800-29938400	Enhancers	Placenta	Placenta
35	chr18:29936800-29940000	Enhancers	Pancreas	Pancrea
36	chr18:29936800-29942400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr18:29937000-29937200	Enhancers	iPS-15b Cell Line	embryonic stem cell
38	chr18:29937000-29938200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr18:29937000-29939000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr18:29937000-29939000	Enhancers	Left Ventricle	heart
41	chr18:29937000-29946200	Weak transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links