Variant report

Variant	rs73956856
Chromosome Location	chr18:29858286-29858287
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:29847813..29851392-chr18:29854747..29858581,3	MCF-7	breast:
2	chr18:29856972..29858473-chr18:30049654..30051815,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000141441	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12457501	1.00[ASN][1000 genomes]
rs16962939	1.00[ASN][1000 genomes]
rs16962940	1.00[ASN][1000 genomes]
rs55780220	1.00[AFR][1000 genomes]
rs57638144	1.00[AFR][1000 genomes]
rs73956843	1.00[AFR][1000 genomes]
rs73956844	1.00[AFR][1000 genomes]
rs73956847	1.00[AFR][1000 genomes]
rs73956849	1.00[AFR][1000 genomes]
rs73956850	1.00[AFR][1000 genomes]
rs73956851	1.00[AFR][1000 genomes]
rs73956852	0.86[AFR][1000 genomes]
rs73956854	0.86[AFR][1000 genomes]
rs73956857	1.00[AFR][1000 genomes]
rs73956858	1.00[AFR][1000 genomes]
rs73956859	1.00[AFR][1000 genomes]
rs73956860	1.00[AFR][1000 genomes]
rs73956862	1.00[AFR][1000 genomes]
rs73956864	0.93[AFR][1000 genomes]
rs73956866	1.00[AFR][1000 genomes]
rs73956868	1.00[AFR][1000 genomes]
rs73956869	1.00[AFR][1000 genomes]
rs73956872	1.00[AFR][1000 genomes]
rs73956873	1.00[AFR][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:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:29835200-29861600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr18:29837400-29867200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr18:29839800-29871800	Weak transcription	HSMMtube	muscle
4	chr18:29843000-29867000	Weak transcription	Brain Angular Gyrus	brain
5	chr18:29846000-29867000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr18:29848200-29863600	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr18:29848400-29860200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr18:29848600-29867200	Weak transcription	Lung	lung
9	chr18:29848800-29866600	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr18:29849400-29867000	Weak transcription	Esophagus	oesophagus
11	chr18:29849800-29867000	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr18:29850000-29860600	Weak transcription	Brain Substantia Nigra	brain
13	chr18:29850000-29877600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr18:29850200-29858400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr18:29850200-29866600	Weak transcription	Fetal Lung	lung
16	chr18:29850200-29867000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr18:29850200-29867000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr18:29850400-29858800	Weak transcription	Ovary	ovary
19	chr18:29850400-29860200	Weak transcription	Left Ventricle	heart
20	chr18:29850400-29865800	Weak transcription	Fetal Muscle Trunk	muscle
21	chr18:29850400-29866600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr18:29850400-29867200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr18:29850600-29858800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr18:29850600-29860400	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr18:29850600-29860600	Weak transcription	Fetal Muscle Leg	muscle
26	chr18:29852200-29865000	Weak transcription	Fetal Stomach	stomach
27	chr18:29854600-29859200	Enhancers	Stomach Mucosa	stomach
28	chr18:29855000-29861000	Enhancers	Fetal Intestine Small	intestine
29	chr18:29855200-29860800	Enhancers	Fetal Intestine Large	intestine
30	chr18:29855800-29859200	Enhancers	Rectal Mucosa Donor 31	rectum
31	chr18:29856000-29858600	Enhancers	Fetal Kidney	kidney
32	chr18:29856800-29859400	Enhancers	Rectal Mucosa Donor 29	rectum
33	chr18:29857000-29859000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr18:29857000-29859000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr18:29857000-29859400	Enhancers	Adipose Nuclei	Adipose
36	chr18:29857000-29863200	Weak transcription	Right Atrium	heart
37	chr18:29857200-29860400	Weak transcription	Small Intestine	intestine
38	chr18:29857400-29859000	Enhancers	Brain Cingulate Gyrus	brain
39	chr18:29857400-29859000	Enhancers	HepG2	liver
40	chr18:29857400-29861000	Enhancers	Duodenum Mucosa	Duodenum
41	chr18:29857400-29862400	Weak transcription	Right Ventricle	heart
42	chr18:29857800-29859000	Enhancers	Colonic Mucosa	Colon
43	chr18:29857800-29860200	Weak transcription	Brain Anterior Caudate	brain
44	chr18:29857800-29861000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr18:29857800-29863400	Weak transcription	Brain Hippocampus Middle	brain
46	chr18:29858000-29858600	Enhancers	Fetal Heart	heart
47	chr18:29858000-29860600	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr18:29858200-29858400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
49	chr18:29858200-29858600	Flanking Active TSS	Liver	Liver
50	chr18:29858200-29859400	Enhancers	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links