Variant report

Variant	rs9390254
Chromosome Location	chr6:145218730-145218731
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:145213043..145215099-chr6:145218450..145220487,2	K562	blood:
2	chr6:145201337..145203638-chr6:145216536..145219357,2	MCF-7	breast:
3	chr6:145218461..145220484-chr6:145220620..145222253,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11969748	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12174209	0.83[EUR][1000 genomes]
rs13195749	0.88[ASN][1000 genomes]
rs13210332	0.92[EUR][1000 genomes]
rs1338704	0.85[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs1338705	0.85[ASN][1000 genomes]
rs2050719	0.84[ASN][1000 genomes]
rs35285375	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35946718	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4323328	0.93[EUR][1000 genomes]
rs4487599	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4896762	0.85[ASN][1000 genomes]
rs57337295	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6570656	0.87[EUR][1000 genomes]
rs6913165	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71547172	0.86[EUR][1000 genomes]
rs7769065	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9285505	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9322003	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9322004	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9322005	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9373433	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9373434	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9376869	0.88[EUR][1000 genomes]
rs9376874	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9386089	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390243	0.86[EUR][1000 genomes]
rs9390251	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9390252	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390253	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390257	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9399514	0.88[EUR][1000 genomes]
rs9399517	0.82[ASN][1000 genomes]
rs9399519	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9399520	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403621	0.91[EUR][1000 genomes]
rs9403627	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9403628	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9403629	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9403631	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9403633	0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9403634	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9497120	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9497121	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9497132	0.86[EUR][1000 genomes]

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	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv1850377	chr6:145199259-145319640	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145215400-145220800	Enhancers	Osteobl	bone
2	chr6:145216400-145221200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:145216600-145219200	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr6:145216800-145218800	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr6:145216800-145219000	Enhancers	Muscle Satellite Cultured Cells	--
6	chr6:145216800-145219200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:145216800-145222400	Enhancers	NHDF-Ad	bronchial
8	chr6:145217000-145219000	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr6:145217000-145219200	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr6:145217000-145220400	Enhancers	HSMM	muscle
11	chr6:145217200-145220200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:145217200-145220400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr6:145217200-145220600	Enhancers	NHLF	lung
14	chr6:145217600-145218800	Enhancers	A549	lung
15	chr6:145217600-145219000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr6:145217600-145220600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:145217600-145221400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:145217800-145218800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr6:145217800-145220200	Enhancers	Hela-S3	cervix
20	chr6:145218000-145219800	Enhancers	HUVEC	blood vessel
21	chr6:145218000-145220200	Enhancers	HSMMtube	muscle
22	chr6:145218200-145220200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:145218200-145220600	Enhancers	HMEC	breast
24	chr6:145218400-145218800	Enhancers	Fetal Intestine Large	intestine
25	chr6:145218400-145219200	Flanking Active TSS	NH-A	brain
26	chr6:145218400-145219400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:145218400-145219800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr6:145218400-145220000	Enhancers	NHEK	skin
29	chr6:145218600-145218800	Enhancers	Rectal Mucosa Donor 31	rectum
30	chr6:145218600-145219000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr6:145218600-145219200	Enhancers	HepG2	liver
32	chr6:145218600-145219400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:145218600-145219400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:145218600-145220000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links