Variant report

Variant	rs16833054
Chromosome Location	chr1:151163426-151163427
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:151161317..151163856-chr1:151235890..151237991,2	MCF-7	breast:
2	chr1:151162193..151163907-chr1:151370731..151372764,2	MCF-7	breast:
3	chr1:151158002..151164153-chr1:151224298..151228623,7	MCF-7	breast:
4	chr1:151156826..151164982-chr1:151165389..151172985,25	MCF-7	breast:
5	chr1:151137906..151140464-chr1:151160968..151164864,6	K562	blood:
6	chr1:151161246..151164199-chr1:151225509..151227562,3	K562	blood:
7	chr1:151128359..151130289-chr1:151160585..151164269,3	K562	blood:
8	chr1:151161951..151163611-chr1:151344546..151346783,2	MCF-7	breast:
9	chr1:151162643..151164803-chr1:151253771..151256720,2	K562	blood:
10	chr1:151042897..151044564-chr1:151161784..151163721,2	MCF-7	breast:
11	chr1:151159807..151164370-chr1:151251735..151254419,4	MCF-7	breast:
12	chr1:151161136..151164205-chr1:151252246..151255061,3	K562	blood:
13	chr1:151144772..151148459-chr1:151159275..151164000,5	MCF-7	breast:
14	chr1:151137992..151140464-chr1:151160968..151164864,4	K562	blood:
15	chr1:151162057..151164706-chr1:151165181..151172008,8	K562	blood:
16	chr1:151136893..151140335-chr1:151160848..151164031,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000163159	Chromatin interaction
ENSG00000143398	Chromatin interaction
ENSG00000163154	Chromatin interaction
ENSG00000163156	Chromatin interaction
ENSG00000159377	Chromatin interaction
ENSG00000163155	Chromatin interaction
ENSG00000143458	Chromatin interaction
ENSG00000143373	Chromatin interaction
ENSG00000159352	Chromatin interaction
ENSG00000232671	Chromatin interaction
ENSG00000143416	Chromatin interaction
ENSG00000163157	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11800088	1.00[AMR][1000 genomes]
rs11800715	1.00[AMR][1000 genomes]
rs11804061	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11804474	1.00[AMR][1000 genomes]
rs11806302	1.00[AMR][1000 genomes]
rs11809569	1.00[AMR][1000 genomes]
rs11809979	1.00[MKK][hapmap];1.00[AMR][1000 genomes]
rs11811310	1.00[MKK][hapmap];1.00[AMR][1000 genomes]
rs12757785	1.00[ASW][hapmap]
rs16832965	1.00[AMR][1000 genomes]
rs16832968	1.00[MKK][hapmap];1.00[AMR][1000 genomes]
rs16832988	1.00[MKK][hapmap];1.00[AMR][1000 genomes]
rs16833008	1.00[AMR][1000 genomes]
rs16833052	0.83[MKK][hapmap];1.00[AMR][1000 genomes]
rs16833100	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16833109	1.00[ASW][hapmap];1.00[AMR][1000 genomes]
rs34570433	1.00[AMR][1000 genomes]
rs41445244	1.00[AMR][1000 genomes]
rs6657146	1.00[MKK][hapmap];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001897	chr1:150743271-151241600	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv535158	chr1:150743271-151241600	Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv522840	chr1:150933723-151347746	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
4	nsv916272	chr1:150961809-151557253	Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	219 gene(s)	inside rSNPs	diseases
5	nsv831559	chr1:151109459-151239921	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
6	nsv831570	chr1:151129020-151281778	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	106 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:151161400-151164600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr1:151162800-151167800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:151162800-151170200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr1:151162800-151170400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr1:151163000-151163600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
6	chr1:151163000-151163600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr1:151163000-151163600	Flanking Active TSS	Dnd41	blood
8	chr1:151163000-151170400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr1:151163200-151163600	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr1:151163200-151163600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr1:151163200-151163600	Flanking Active TSS	A549	lung
12	chr1:151163200-151163600	Flanking Active TSS	K562	blood
13	chr1:151163200-151163800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr1:151163200-151166400	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr1:151163200-151167000	Weak transcription	Stomach Mucosa	stomach
16	chr1:151163200-151167600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr1:151163200-151167600	Weak transcription	HSMM	muscle
18	chr1:151163200-151167800	Weak transcription	Adipose Nuclei	Adipose
19	chr1:151163200-151168600	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr1:151163200-151168600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr1:151163200-151170400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr1:151163200-151170400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr1:151163200-151170400	Weak transcription	Gastric	stomach
24	chr1:151163200-151170400	Weak transcription	Left Ventricle	heart
25	chr1:151163400-151163600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:151163400-151163600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr1:151163400-151163600	Enhancers	Primary T killer memory cells from peripheral blood	blood
28	chr1:151163400-151163600	Enhancers	Muscle Satellite Cultured Cells	--
29	chr1:151163400-151163600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr1:151163400-151163600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr1:151163400-151163600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
32	chr1:151163400-151163600	Enhancers	Duodenum Smooth Muscle	Duodenum
33	chr1:151163400-151163600	Active TSS	Monocytes-CD14+_RO01746	blood
34	chr1:151163400-151163600	Flanking Active TSS	NHEK	skin
35	chr1:151163400-151163600	Enhancers	Osteobl	bone
36	chr1:151163400-151163800	Enhancers	ES-I3 Cell Line	embryonic stem cell
37	chr1:151163400-151163800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
38	chr1:151163400-151163800	Enhancers	Primary T helper cells PMA-I stimulated	--
39	chr1:151163400-151163800	Enhancers	Hela-S3	cervix
40	chr1:151163400-151163800	Enhancers	HepG2	liver
41	chr1:151163400-151163800	Enhancers	NHDF-Ad	bronchial
42	chr1:151163400-151164200	Weak transcription	Rectal Smooth Muscle	rectum
43	chr1:151163400-151166000	Weak transcription	Placenta	Placenta
44	chr1:151163400-151166400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr1:151163400-151166400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr1:151163400-151166400	Weak transcription	HMEC	breast
47	chr1:151163400-151166400	Weak transcription	NHLF	lung
48	chr1:151163400-151166600	Weak transcription	Duodenum Mucosa	Duodenum
49	chr1:151163400-151166800	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr1:151163400-151166800	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links