Variant report

Variant	rs16888873
Chromosome Location	chr8:117856695-117856696
allele	G/T
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr8:117854618..117858375-chr8:117860492..117864131,4	K562	blood:
2	chr8:117854712..117858080-chr8:117883055..117888027,5	K562	blood:
3	chr8:117855517..117858008-chr8:117880240..117882467,2	K562	blood:
4	chr8:117855745..117858425-chr8:117866524..117868307,3	K562	blood:
5	chr8:117847223..117849711-chr8:117856512..117859116,2	MCF-7	breast:
6	chr8:117855246..117857317-chr8:117857699..117859236,2	MCF-7	breast:
7	chr8:117848684..117853710-chr8:117854068..117860611,8	K562	blood:
8	chr8:117854618..117857279-chr8:117860492..117862801,2	K562	blood:
9	chr8:117849321..117852329-chr8:117852764..117857152,5	K562	blood:

No data

Variant related genes	Relation type
ENSG00000264875	Chromatin interaction
ENSG00000164754	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11984783	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11986244	1.00[AMR][1000 genomes]
rs11988252	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11988890	1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11992843	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11993461	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11995008	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11996899	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11998115	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16888867	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16888957	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16888968	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16888995	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16889027	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16889103	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16889160	1.00[ASW][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16889284	1.00[MEX][hapmap]
rs16889303	1.00[MEX][hapmap]
rs17435839	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34316616	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58084260	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61637286	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7826859	1.00[MEX][hapmap]
rs7843159	1.00[MEX][hapmap]
rs7844000	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530386	chr8:117509968-118391406	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv831434	chr8:117784467-117977825	Flanking Active TSS Genic enhancers Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:117840800-117859400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr8:117841000-117856800	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr8:117848200-117858600	Weak transcription	HepG2	liver
4	chr8:117848400-117863800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr8:117850000-117859600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr8:117850400-117857200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr8:117850800-117858200	Weak transcription	Primary B cells from cord blood	blood
8	chr8:117850800-117858800	Weak transcription	Ovary	ovary
9	chr8:117852000-117859000	Weak transcription	Primary hematopoietic stem cells	blood
10	chr8:117852400-117857600	Weak transcription	A549	lung
11	chr8:117852400-117859200	Weak transcription	Fetal Heart	heart
12	chr8:117852400-117877000	Weak transcription	Fetal Intestine Small	intestine
13	chr8:117852600-117857000	Weak transcription	Hela-S3	cervix
14	chr8:117852600-117857800	Weak transcription	HMEC	breast
15	chr8:117852600-117858000	Weak transcription	Primary B cells from peripheral blood	blood
16	chr8:117852600-117859200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr8:117852800-117860800	Weak transcription	Small Intestine	intestine
18	chr8:117853000-117856800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr8:117853000-117881400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr8:117853200-117857200	Weak transcription	HUVEC	blood vessel
21	chr8:117853200-117857600	Weak transcription	Duodenum Mucosa	Duodenum
22	chr8:117853200-117858400	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr8:117853400-117859000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr8:117853400-117859000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr8:117853400-117860000	Weak transcription	Esophagus	oesophagus
26	chr8:117853600-117857400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr8:117853600-117857600	Weak transcription	NH-A	brain
28	chr8:117853600-117858800	Weak transcription	Brain Cingulate Gyrus	brain
29	chr8:117853600-117858800	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr8:117853800-117856800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr8:117853800-117857200	Weak transcription	Osteobl	bone
32	chr8:117853800-117858600	Weak transcription	NHEK	skin
33	chr8:117853800-117858800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr8:117854000-117858000	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr8:117854000-117858600	Weak transcription	Fetal Lung	lung
36	chr8:117854200-117858600	Weak transcription	NHDF-Ad	bronchial
37	chr8:117854400-117856800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr8:117854400-117859600	Weak transcription	Aorta	Aorta
39	chr8:117854600-117858400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr8:117854600-117858800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr8:117854800-117859200	Weak transcription	Brain Substantia Nigra	brain
42	chr8:117854800-117859600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr8:117854800-117863800	Weak transcription	Gastric	stomach
44	chr8:117854800-117875000	Strong transcription	Dnd41	blood
45	chr8:117855000-117856800	Weak transcription	HSMM	muscle
46	chr8:117855000-117857200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr8:117855000-117858600	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr8:117855000-117858800	Weak transcription	Colon Smooth Muscle	Colon
49	chr8:117855000-117859200	Weak transcription	Brain Angular Gyrus	brain
50	chr8:117855000-117859800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links