Variant report

Variant	rs1233592
Chromosome Location	chr6:28725804-28725805
allele	C/G
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:25)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:25 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28695559..28699343-chr6:28721391..28727067,6	K562	blood:
2	chr6:28725563..28727836-chr6:28829378..28832246,2	K562	blood:
3	chr6:28670960..28673190-chr6:28724668..28726201,2	K562	blood:
4	chr6:28676549..28680840-chr6:28724202..28726516,6	K562	blood:
5	chr6:28723896..28728359-chr6:28734827..28738855,4	K562	blood:
6	chr6:28708828..28711796-chr6:28725533..28729587,4	K562	blood:
7	chr6:28692707..28694832-chr6:28724756..28727492,3	K562	blood:
8	chr6:28724691..28726278-chr6:28843409..28846175,2	K562	blood:
9	chr6:28704393..28708100-chr6:28724005..28727294,4	K562	blood:
10	chr6:28704284..28707045-chr6:28723983..28725942,2	MCF-7	breast:
11	chr6:28723977..28727923-chr6:28779903..28783132,3	K562	blood:
12	chr6:28725484..28727930-chr6:28757614..28759136,2	K562	blood:
13	chr6:28700497..28703412-chr6:28724677..28728589,3	K562	blood:
14	chr6:28723896..28728359-chr6:28734827..28738855,6	K562	blood:
15	chr6:28723907..28726622-chr6:28947645..28950512,2	K562	blood:
16	chr6:28724813..28727063-chr6:28829378..28832133,3	K562	blood:
17	chr6:28695145..28698066-chr6:28723238..28727067,5	K562	blood:
18	chr6:28724879..28727227-chr6:28741838..28744076,3	K562	blood:
19	chr6:28724259..28726236-chr6:28749088..28750915,2	K562	blood:
20	chr6:28724879..28727227-chr6:28741838..28744076,2	K562	blood:
21	chr6:28676549..28680032-chr6:28724574..28727425,3	K562	blood:
22	chr6:28712043..28717130-chr6:28723838..28729658,8	K562	blood:
23	chr6:28687184..28690282-chr6:28725684..28728661,4	K562	blood:
24	chr6:28724345..28725903-chr6:28805284..28806800,2	K562	blood:
25	chr6:28723125..28726078-chr6:28775767..28777359,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000221191	Chromatin interaction
ENSG00000225173	Chromatin interaction
ENSG00000225595	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10456364	0.82[AMR][1000 genomes]
rs10456365	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1233572	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1233575	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1233576	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1233577	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1233584	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1233586	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1233596	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1233602	0.90[AMR][1000 genomes]
rs1235176	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2394152	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4713178	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9257134	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9257135	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9348813	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9366725	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9391676	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9404960	0.86[AMR][1000 genomes];0.82[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	nsv534089	chr6:28636972-28841640	Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28724000-28726400	Active TSS	Hela-S3	cervix
2	chr6:28724600-28726800	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
3	chr6:28724800-28726200	Active TSS	HUES64 Cell Line	embryonic stem cell
4	chr6:28724800-28726600	Active TSS	HUES6 Cell Line	embryonic stem cell
5	chr6:28724800-28726600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
6	chr6:28724800-28726800	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr6:28725000-28726000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:28725000-28726200	Active TSS	iPS-20b Cell Line	embryonic stem cell
9	chr6:28725000-28726400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr6:28725000-28726400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr6:28725000-28726600	Active TSS	H1 Cell Line	embryonic stem cell
12	chr6:28725000-28726600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
13	chr6:28725000-28726600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr6:28725000-28726600	Active TSS	K562	blood
15	chr6:28725000-28726800	Active TSS	H9 Cell Line	embryonic stem cell
16	chr6:28725000-28726800	Active TSS	A549	lung
17	chr6:28725000-28726800	Active TSS	HMEC	breast
18	chr6:28725200-28726000	Flanking Active TSS	Placenta	Placenta
19	chr6:28725200-28726200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr6:28725200-28726200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:28725200-28726200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr6:28725200-28726200	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:28725200-28726200	Active TSS	NHEK	skin
24	chr6:28725200-28726400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
25	chr6:28725400-28726000	Flanking Bivalent TSS/Enh	HepG2	liver
26	chr6:28725400-28726200	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:28725400-28726200	Bivalent/Poised TSS	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr6:28725400-28726400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:28725600-28726200	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:28725600-28726200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr6:28725600-28726200	Active TSS	Ovary	ovary
32	chr6:28725600-28726400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:28725600-28726400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr6:28725600-28726600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
35	chr6:28725600-28726600	Active TSS	NH-A	brain
36	chr6:28725800-28726000	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr6:28725800-28726200	Bivalent Enhancer	Liver	Liver
38	chr6:28725800-28726400	Active TSS	Muscle Satellite Cultured Cells	--
39	chr6:28725800-28726400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin

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