Variant report

Variant	rs606576
Chromosome Location	chr18:29870550-29870551
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	chr18:29868718..29871349-chr18:30049265..30052223,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000141441	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1614242	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs470958	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs613616	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs613941	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs625863	0.98[ASN][1000 genomes]
rs635901	0.97[ASN][1000 genomes]
rs636809	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs645526	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs646452	0.93[ASN][1000 genomes]
rs647499	0.95[ASN][1000 genomes]
rs669116	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs683375	0.98[ASN][1000 genomes]
rs9510	0.97[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	nsv1056007	chr18:29711974-29899564	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	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
3	nsv528846	chr18:29832147-29890042	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29839800-29871800	Weak transcription	HSMMtube	muscle
2	chr18:29850000-29877600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr18:29858600-29877600	Weak transcription	Fetal Kidney	kidney
4	chr18:29861000-29871000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr18:29861000-29876000	Weak transcription	Small Intestine	intestine
6	chr18:29861600-29876800	Weak transcription	Stomach Mucosa	stomach
7	chr18:29862400-29872400	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr18:29863200-29873000	Weak transcription	Right Ventricle	heart
9	chr18:29863200-29877000	Weak transcription	Fetal Heart	heart
10	chr18:29864400-29880800	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr18:29864600-29881200	Weak transcription	Colon Smooth Muscle	Colon
12	chr18:29865600-29873200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr18:29867800-29872400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr18:29867800-29873200	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr18:29867800-29877800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr18:29867800-29878000	Weak transcription	Fetal Lung	lung
17	chr18:29867800-29880400	Weak transcription	Aorta	Aorta
18	chr18:29867800-29881800	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr18:29868000-29870800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr18:29868000-29870800	Weak transcription	Brain Substantia Nigra	brain
21	chr18:29868000-29871000	Weak transcription	Fetal Intestine Small	intestine
22	chr18:29868000-29871600	Weak transcription	Liver	Liver
23	chr18:29868000-29871800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr18:29868000-29872400	Weak transcription	Pancreas	Pancrea
25	chr18:29868000-29872800	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr18:29868000-29873000	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr18:29868000-29876200	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr18:29868000-29877600	Weak transcription	Fetal Brain Female	brain
29	chr18:29868000-29877800	Weak transcription	Duodenum Mucosa	Duodenum
30	chr18:29868000-29878000	Weak transcription	Adipose Nuclei	Adipose
31	chr18:29868000-29878200	Weak transcription	Brain Angular Gyrus	brain
32	chr18:29868000-29878200	Weak transcription	Fetal Stomach	stomach
33	chr18:29868000-29888800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr18:29868000-29888800	Weak transcription	Brain Hippocampus Middle	brain
35	chr18:29868000-29889000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr18:29868000-29889000	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr18:29868200-29870800	Weak transcription	Fetal Muscle Trunk	muscle
38	chr18:29868200-29871600	Weak transcription	Fetal Muscle Leg	muscle
39	chr18:29868200-29873200	Weak transcription	Stomach Smooth Muscle	stomach
40	chr18:29868200-29889800	Weak transcription	Brain Cingulate Gyrus	brain
41	chr18:29868200-29923800	Weak transcription	Gastric	stomach
42	chr18:29870000-29870800	Weak transcription	A549	lung
43	chr18:29870000-29878000	Weak transcription	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links