Variant report

Variant	rs9257405
Chromosome Location	chr6:28922437-28922438
allele	A/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:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28804076..28806200-chr6:28922392..28924838,2	K562	blood:
2	chr6:28921551..28923708-chr6:28958891..28962206,3	K562	blood:
3	chr6:28863289..28866205-chr6:28921133..28924025,2	K562	blood:
4	chr6:28863727..28866430-chr6:28920617..28922633,3	K562	blood:
5	chr6:28920218..28924369-chr6:28968578..28972504,4	K562	blood:
6	chr6:28920183..28922796-chr6:28965172..28967810,2	K562	blood:
7	chr6:28857766..28860290-chr6:28920868..28922677,2	K562	blood:
8	chr22:29197206..29200027-chr6:28920726..28923051,2	MCF-7	breast:
9	chr6:28907315..28909915-chr6:28920300..28923261,2	MCF-7	breast:
10	chr6:28889277..28892149-chr6:28920165..28923545,3	K562	blood:
11	chr6:28918185..28920512-chr6:28921430..28924835,3	MCF-7	breast:
12	chr6:28916972..28925607-chr6:28947207..28951909,14	K562	blood:
13	chr6:28905933..28927444-chr6:28943937..28954526,53	K562	blood:
14	chr6:28676149..28677937-chr6:28921476..28924088,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000224157	Chromatin interaction
ENSG00000226471	Chromatin interaction
ENSG00000263426	Chromatin interaction
ENSG00000227214	Chromatin interaction
ENSG00000204713	Chromatin interaction

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs1005123	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1237485	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1476016	0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1543796	0.86[ASN][1000 genomes]
rs1794587	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs184093	0.89[ASN][1000 genomes]
rs2013848	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2032500	0.87[ASN][1000 genomes]
rs2071785	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2071790	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs209122	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs209126	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs209128	0.89[ASN][1000 genomes]
rs209129	0.89[ASN][1000 genomes]
rs209137	0.87[ASN][1000 genomes]
rs209138	0.80[ASN][1000 genomes]
rs209148	0.88[ASN][1000 genomes]
rs209149	0.86[ASN][1000 genomes]
rs209152	0.81[ASN][1000 genomes]
rs209153	0.81[ASN][1000 genomes]
rs209160	0.82[ASN][1000 genomes]
rs209161	0.82[ASN][1000 genomes]
rs209163	0.82[ASN][1000 genomes]
rs209164	0.81[ASN][1000 genomes]
rs2157312	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2157313	0.88[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2179648	0.84[ASN][1000 genomes]
rs2187807	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2187808	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2269555	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2394512	0.86[ASN][1000 genomes]
rs2765229	0.89[ASN][1000 genomes]
rs3129792	0.90[ASN][1000 genomes]
rs3129793	0.88[ASN][1000 genomes]
rs3130841	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3130842	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3130886	0.91[ASN][1000 genomes]
rs3130889	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3130897	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3131070	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3131074	0.88[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3131077	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3131100	0.81[ASN][1000 genomes]
rs3131102	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3135303	0.82[ASN][1000 genomes]
rs3135315	0.84[ASN][1000 genomes]
rs3135321	0.90[ASN][1000 genomes]
rs3135322	0.90[ASN][1000 genomes]
rs3135323	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3135324	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3135326	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3135327	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3135328	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs381808	0.88[ASN][1000 genomes]
rs393431	0.82[ASN][1000 genomes]
rs4427026	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4713186	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4713187	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4713188	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713190	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713192	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4947339	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6456876	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6456880	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6456883	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6456891	0.82[ASN][1000 genomes]
rs6901599	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6904975	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6906909	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6914955	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6916161	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6920392	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6927132	0.81[EUR][1000 genomes]
rs6931823	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs763009	0.95[ASN][1000 genomes]
rs7743189	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7755875	0.82[ASN][1000 genomes]
rs7761547	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7768299	0.86[ASN][1000 genomes]
rs9257401	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9257403	0.84[ASN][1000 genomes]
rs9257404	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9257408	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9257421	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9257447	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9257449	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9257455	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9257461	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9257464	0.81[EUR][1000 genomes]
rs9348816	0.86[ASN][1000 genomes]
rs9393939	0.86[ASN][1000 genomes]
rs9468467	0.87[ASN][1000 genomes]
rs9468472	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883519	chr6:28792477-28936556	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
2	nsv427748	chr6:28831888-28999434	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
3	nsv830622	chr6:28861667-29015804	Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28921000-28922800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:28921200-28922600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr6:28921200-28922600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:28921200-28922800	Active TSS	Colonic Mucosa	Colon
5	chr6:28921600-28922600	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
6	chr6:28921600-28922800	Active TSS	Fetal Intestine Small	intestine
7	chr6:28922000-28923200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr6:28922000-28923400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:28922200-28922600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
10	chr6:28922200-28922600	Active TSS	HepG2	liver
11	chr6:28922200-28922800	Active TSS	Duodenum Mucosa	Duodenum
12	chr6:28922200-28923000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
13	chr6:28922200-28923000	Enhancers	K562	blood
14	chr6:28922200-28923200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr6:28922200-28923800	Enhancers	NHEK	skin
16	chr6:28922200-28928400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr6:28922200-28930600	Weak transcription	Right Atrium	heart
18	chr6:28922400-28922600	Enhancers	Placenta	Placenta
19	chr6:28922400-28922800	Active TSS	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links