Variant report

Variant	rs28533067
Chromosome Location	chr16:58558107-58558108
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:58557005..58559914-chr16:58562808..58564905,2	K562	blood:
2	chr16:58545940..58551958-chr16:58552972..58559739,9	MCF-7	breast:
3	chr16:58555991..58560460-chr16:58560581..58565710,4	MCF-7	breast:
4	chr16:58549190..58551498-chr16:58557377..58561014,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000125107	Chromatin interaction
ENSG00000103037	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs13329892	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13333754	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13334745	1.00[EUR][1000 genomes]
rs13334922	1.00[EUR][1000 genomes]
rs13335464	1.00[EUR][1000 genomes]
rs13335851	1.00[EUR][1000 genomes]
rs13335953	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13337650	1.00[EUR][1000 genomes]
rs13339352	1.00[EUR][1000 genomes]
rs28394663	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28468502	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28472773	1.00[EUR][1000 genomes]
rs28530777	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28613241	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28644182	1.00[EUR][1000 genomes]
rs28744389	1.00[EUR][1000 genomes]
rs34698978	1.00[EUR][1000 genomes]
rs57335704	1.00[EUR][1000 genomes]
rs7186446	1.00[EUR][1000 genomes]
rs7193580	1.00[EUR][1000 genomes]
rs73550817	1.00[EUR][1000 genomes]
rs73550821	1.00[EUR][1000 genomes]
rs73558468	1.00[EUR][1000 genomes]
rs8048686	1.00[EUR][1000 genomes]
rs9746055	1.00[EUR][1000 genomes]
rs9923409	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9924494	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9926053	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9930277	1.00[EUR][1000 genomes]
rs9938192	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9938386	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9939324	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9941013	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9941175	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]

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	nsv532532	chr16:58116482-58611986	Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:58548800-58635600	Strong transcription	Dnd41	blood
2	chr16:58550000-58576200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr16:58550000-58635800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr16:58550400-58565800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr16:58550400-58595600	Strong transcription	NHDF-Ad	bronchial
6	chr16:58550600-58560200	Strong transcription	Gastric	stomach
7	chr16:58550600-58568000	Weak transcription	Right Atrium	heart
8	chr16:58550600-58569800	Strong transcription	Muscle Satellite Cultured Cells	--
9	chr16:58550600-58574800	Strong transcription	Brain Cingulate Gyrus	brain
10	chr16:58550600-58581000	Strong transcription	NH-A	brain
11	chr16:58550600-58594800	Strong transcription	A549	lung
12	chr16:58550600-58595600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr16:58550600-58596400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr16:58550600-58596800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr16:58550600-58625200	Strong transcription	Fetal Muscle Trunk	muscle
16	chr16:58550600-58635200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr16:58550800-58560200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr16:58550800-58561600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr16:58550800-58561800	Strong transcription	Colonic Mucosa	Colon
20	chr16:58550800-58562000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr16:58550800-58562000	Strong transcription	Esophagus	oesophagus
22	chr16:58550800-58562400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr16:58550800-58562400	Strong transcription	Brain Angular Gyrus	brain
24	chr16:58550800-58562400	Strong transcription	Brain Inferior Temporal Lobe	brain
25	chr16:58550800-58562400	Strong transcription	Fetal Brain Female	brain
26	chr16:58550800-58562400	Strong transcription	Fetal Stomach	stomach
27	chr16:58550800-58562400	Strong transcription	Spleen	Spleen
28	chr16:58550800-58569600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr16:58550800-58575800	Strong transcription	HSMMtube	muscle
30	chr16:58550800-58580400	Strong transcription	Stomach Smooth Muscle	stomach
31	chr16:58550800-58581200	Strong transcription	Osteobl	bone
32	chr16:58550800-58581400	Strong transcription	Rectal Smooth Muscle	rectum
33	chr16:58550800-58585800	Strong transcription	Brain Anterior Caudate	brain
34	chr16:58550800-58594200	Strong transcription	HUVEC	blood vessel
35	chr16:58550800-58594600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr16:58550800-58594600	Strong transcription	HSMM	muscle
37	chr16:58550800-58594800	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr16:58550800-58594800	Strong transcription	Placenta	Placenta
39	chr16:58550800-58595200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr16:58550800-58595200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr16:58550800-58596600	Strong transcription	Fetal Intestine Large	intestine
42	chr16:58550800-58597000	Strong transcription	Sigmoid Colon	Sigmoid Colon
43	chr16:58550800-58606000	Strong transcription	Primary B cells from cord blood	blood
44	chr16:58550800-58616600	Strong transcription	Primary neutrophils fromperipheralblood	blood
45	chr16:58550800-58623200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr16:58550800-58625000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr16:58551000-58560000	Strong transcription	Brain Germinal Matrix	brain
48	chr16:58551000-58562200	Strong transcription	Lung	lung
49	chr16:58551000-58562400	Strong transcription	H9 Cell Line	embryonic stem cell
50	chr16:58551000-58562400	Strong transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links