Variant report

Variant	rs73855350
Chromosome Location	chr3:105570358-105570359
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105567530..105570429-chr3:105573055..105575422,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs55857799	1.00[AMR][1000 genomes]
rs55949717	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56004331	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56072602	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56122972	1.00[AMR][1000 genomes]
rs56249671	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56256418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56696279	1.00[AMR][1000 genomes]
rs57184464	1.00[AMR][1000 genomes]
rs58512451	1.00[AMR][1000 genomes]
rs58846261	1.00[AMR][1000 genomes]
rs58991769	1.00[AMR][1000 genomes]
rs59294274	1.00[AMR][1000 genomes]
rs59347770	1.00[AMR][1000 genomes]
rs59577696	1.00[AMR][1000 genomes]
rs59924993	1.00[AMR][1000 genomes]
rs61115724	1.00[AMR][1000 genomes]
rs61230240	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61452551	1.00[AMR][1000 genomes]
rs73854347	1.00[AMR][1000 genomes]
rs73854349	1.00[AMR][1000 genomes]
rs73854350	1.00[AMR][1000 genomes]
rs73854352	1.00[AMR][1000 genomes]
rs73854353	1.00[AMR][1000 genomes]
rs73854354	1.00[AMR][1000 genomes]
rs73854355	1.00[AMR][1000 genomes]
rs73854356	1.00[AMR][1000 genomes]
rs73854359	1.00[AMR][1000 genomes]
rs73854361	1.00[AMR][1000 genomes]
rs73854378	1.00[AMR][1000 genomes]
rs73854385	1.00[AMR][1000 genomes]
rs73854389	1.00[AMR][1000 genomes]
rs73854390	1.00[AMR][1000 genomes]
rs73854392	1.00[AMR][1000 genomes]
rs73854393	1.00[AMR][1000 genomes]
rs73854395	1.00[AMR][1000 genomes]
rs73854396	1.00[AMR][1000 genomes]
rs73854397	1.00[AMR][1000 genomes]
rs73854402	1.00[AMR][1000 genomes]
rs73854884	1.00[AMR][1000 genomes]
rs73854886	1.00[AMR][1000 genomes]
rs73854889	1.00[AMR][1000 genomes]
rs73854892	1.00[AMR][1000 genomes]
rs73855352	1.00[AMR][1000 genomes]
rs73855362	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73855363	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73855365	1.00[AMR][1000 genomes]
rs73855366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73857223	1.00[AMR][1000 genomes]
rs73857224	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1008564	chr3:105554580-105643435	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1008876	chr3:105554580-105645373	Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv877312	chr3:105560638-105916506	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105543400-105581200	Weak transcription	Gastric	stomach
2	chr3:105543800-105571000	Weak transcription	Lung	lung
3	chr3:105544200-105584600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:105546600-105586200	Weak transcription	Esophagus	oesophagus
5	chr3:105549000-105571800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:105555800-105576600	Weak transcription	Psoas Muscle	Psoas
7	chr3:105556200-105571600	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr3:105556200-105579000	Weak transcription	Stomach Mucosa	stomach
9	chr3:105557800-105579200	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr3:105557800-105586200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:105558200-105571800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr3:105558600-105586600	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr3:105561600-105586200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:105562000-105586000	Weak transcription	K562	blood
15	chr3:105563000-105584600	Weak transcription	Stomach Smooth Muscle	stomach
16	chr3:105563000-105586800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr3:105563200-105571600	Weak transcription	Fetal Intestine Small	intestine
18	chr3:105563200-105572000	Weak transcription	HUVEC	blood vessel
19	chr3:105563200-105572200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr3:105563400-105583000	Weak transcription	Spleen	Spleen
21	chr3:105563800-105584400	Weak transcription	Brain Angular Gyrus	brain
22	chr3:105564800-105585000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr3:105565600-105572000	Weak transcription	HMEC	breast
24	chr3:105565600-105584800	Weak transcription	NHEK	skin
25	chr3:105565800-105570600	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr3:105566000-105570400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr3:105566000-105571800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr3:105566000-105574800	Strong transcription	Placenta	Placenta
29	chr3:105566200-105584800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr3:105566200-105585000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr3:105566400-105574000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
32	chr3:105566600-105572000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr3:105566600-105581200	Weak transcription	Aorta	Aorta
34	chr3:105566600-105584600	Weak transcription	Fetal Stomach	stomach
35	chr3:105567000-105571800	Weak transcription	Colon Smooth Muscle	Colon
36	chr3:105567000-105576600	Weak transcription	Right Ventricle	heart
37	chr3:105567000-105578800	Weak transcription	Fetal Brain Male	brain
38	chr3:105567000-105583000	Weak transcription	Brain Substantia Nigra	brain
39	chr3:105567000-105584200	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr3:105567200-105571800	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr3:105567200-105576600	Weak transcription	Ovary	ovary
42	chr3:105567200-105583200	Weak transcription	Brain Hippocampus Middle	brain
43	chr3:105567200-105584000	Weak transcription	Brain Anterior Caudate	brain
44	chr3:105567200-105584600	Weak transcription	Rectal Smooth Muscle	rectum
45	chr3:105567400-105574000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr3:105567600-105571800	Weak transcription	Fetal Heart	heart
47	chr3:105567600-105573000	Strong transcription	Primary T cells fromperipheralblood	blood
48	chr3:105567600-105574200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr3:105567600-105574600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr3:105567800-105572600	Strong transcription	HUES64 Cell Line	embryonic stem cell

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