Variant report

Variant	rs73401243
Chromosome Location	chr6:26333488-26333489
allele	C/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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:26331970..26333616-chr6:26520113..26522667,2	K562	blood:
2	chr6:26329307..26333799-chr6:26568024..26573999,9	K562	blood:
3	chr6:26330749..26333675-chr6:26599169..26602051,2	K562	blood:
4	chr6:26327903..26334280-chr6:26553526..26557732,8	K562	blood:
5	chr6:26331657..26333799-chr6:26567368..26569524,2	K562	blood:
6	chr6:26332412..26338207-chr6:26594644..26597899,6	K562	blood:
7	chr6:26332412..26334494-chr6:26595085..26597642,2	K562	blood:
8	chr6:26328637..26334167-chr6:26519696..26523328,10	K562	blood:
9	chr6:26330591..26334286-chr6:26537283..26540361,5	K562	blood:
10	chr6:26328431..26333737-chr6:26535954..26540361,8	K562	blood:

No data

Variant related genes	Relation type
ENSG00000182952	Chromatin interaction
ENSG00000228223	Chromatin interaction
ENSG00000146109	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11751564	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11751567	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11754168	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11754384	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11754746	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11755795	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11756428	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11757214	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11757736	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11759682	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11962642	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2006005	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2006006	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34434694	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3823157	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs41266829	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs41266831	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56768418	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs57145038	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57530446	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59225416	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60122474	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60228626	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61082103	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61213538	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61625476	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6901243	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6916643	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6938696	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73393491	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73393492	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73395313	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73395314	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73397320	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73397336	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73397339	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73397347	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73397364	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73399366	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73399394	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73401208	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73401228	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73401231	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73401236	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7740838	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7761779	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7773163	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9688734	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1030351	chr6:25813178-26352046	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1189 gene(s)	inside rSNPs	diseases
4	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers 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 target site	1201 gene(s)	inside rSNPs	diseases
5	nsv428137	chr6:25987413-26351920	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1181 gene(s)	inside rSNPs	diseases
6	nsv1018665	chr6:26026870-26352046	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1116 gene(s)	inside rSNPs	diseases
7	nsv482729	chr6:26291011-26470898	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers 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	45 gene(s)	inside rSNPs	diseases
8	nsv5230	chr6:26321593-26361531	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26330600-26333600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
2	chr6:26332400-26336000	Weak transcription	HSMMtube	muscle
3	chr6:26332600-26336200	Weak transcription	HSMM	muscle
4	chr6:26332600-26336400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr6:26333000-26333600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:26333000-26335800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:26333000-26336000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr6:26333000-26336000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr6:26333000-26336000	Weak transcription	Osteobl	bone
10	chr6:26333000-26336200	Weak transcription	NH-A	brain
11	chr6:26333000-26336200	Weak transcription	NHLF	lung
12	chr6:26333000-26336400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr6:26333000-26337200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:26333000-26341600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr6:26333000-26342200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:26333200-26333600	Enhancers	K562	blood
17	chr6:26333200-26333800	Enhancers	A549	lung
18	chr6:26333200-26335600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr6:26333200-26336000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr6:26333200-26336000	Weak transcription	GM12878-XiMat	blood
21	chr6:26333200-26336000	Weak transcription	NHEK	skin
22	chr6:26333200-26336400	Weak transcription	HMEC	breast
23	chr6:26333400-26334400	Enhancers	HepG2	liver
24	chr6:26333400-26335600	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links