Variant report

Variant	rs9428526
Chromosome Location	chr1:241981270-241981271
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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:241972366..241975039-chr1:241979342..241982449,3	MCF-7	breast:
2	chr1:241801647..241805071-chr1:241978967..241982321,4	MCF-7	breast:
3	chr1:241980697..241983127-chr1:241987544..241989477,2	K562	blood:
4	chr1:241980441..241982044-chr1:242011134..242013997,2	K562	blood:
5	chr1:241972003..241974042-chr1:241981060..241983771,2	K562	blood:
6	chr1:241980403..241982619-chr1:241984891..241986981,2	K562	blood:
7	chr1:241803378..241805709-chr1:241977902..241981601,4	MCF-7	breast:
8	chr1:241801162..241804735-chr1:241978255..241982638,4	K562	blood:
9	chr1:241801309..241803243-chr1:241980186..241981798,2	MCF-7	breast:
10	chr1:241976902..241978812-chr1:241979231..241982156,2	K562	blood:
11	chr1:241969994..241971972-chr1:241979527..241981528,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000054277	Chromatin interaction
ENSG00000174371	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10047251	0.88[CEU][hapmap]
rs10489351	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10926555	0.82[JPT][hapmap]
rs10926568	0.94[CEU][hapmap]
rs10926572	0.94[CEU][hapmap]
rs10926574	0.86[CEU][hapmap]
rs12021981	0.89[ASN][1000 genomes]
rs12030185	0.93[ASN][1000 genomes]
rs12033730	0.80[JPT][hapmap]
rs12037438	0.98[ASN][1000 genomes]
rs12047688	0.98[ASN][1000 genomes]
rs12074374	0.94[CEU][hapmap]
rs12075350	0.88[CEU][hapmap]
rs12091633	0.87[CEU][hapmap]
rs12095445	0.94[CEU][hapmap]
rs13375989	0.88[CEU][hapmap]
rs1342867	1.00[CEU][hapmap]
rs4658798	1.00[CEU][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes]
rs6429298	0.88[CEU][hapmap]
rs6429299	0.94[CEU][hapmap]
rs6429302	0.94[CEU][hapmap]
rs6429311	0.88[CEU][hapmap]
rs6660576	0.88[CEU][hapmap]
rs6660686	0.88[CEU][hapmap]
rs6663895	0.94[CEU][hapmap]
rs6667772	0.87[CEU][hapmap]
rs6670605	0.88[CEU][hapmap]
rs6680528	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6685969	0.86[CEU][hapmap]
rs6694094	0.84[CEU][hapmap]
rs6698158	0.94[CEU][hapmap]
rs6698460	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6703922	0.92[CEU][hapmap]
rs7514880	0.88[CEU][hapmap]
rs7524386	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7526450	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7540780	0.93[AFR][1000 genomes]
rs7552731	0.94[CEU][hapmap]
rs7554579	0.88[CEU][hapmap]
rs851777	1.00[CEU][hapmap]
rs9428522	0.93[CEU][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes]
rs9428523	0.92[AFR][1000 genomes]
rs9428896	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9428897	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918034	chr1:241072791-242005532	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
2	nsv997966	chr1:241100739-242087629	Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
3	nsv1002214	chr1:241458939-242099790	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
4	nsv873368	chr1:241533392-242195928	Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	nsv873372	chr1:241690554-242438293	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
6	nsv948409	chr1:241830086-242489705	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv528015	chr1:241865219-242070731	Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv1008300	chr1:241886514-242171611	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
9	esv2762521	chr1:241891040-242074222	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	nsv873373	chr1:241939069-242027500	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
11	nsv873374	chr1:241975147-242097624	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:241976600-241981400	Weak transcription	K562	blood
2	chr1:241977400-241981800	Enhancers	Hela-S3	cervix
3	chr1:241979400-241982000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr1:241980000-241981800	Enhancers	NHLF	lung
5	chr1:241980000-241982000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:241980000-241982200	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr1:241980000-241982200	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr1:241980200-241981800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr1:241980200-241981800	Enhancers	Muscle Satellite Cultured Cells	--
10	chr1:241980200-241981800	Enhancers	NHDF-Ad	bronchial
11	chr1:241980800-241982000	Enhancers	Primary B cells from cord blood	blood
12	chr1:241981000-241981800	Enhancers	Aorta	Aorta
13	chr1:241981000-241982000	Enhancers	Primary B cells from peripheral blood	blood
14	chr1:241981200-241984800	Weak transcription	A549	lung
15	chr1:241981200-241992000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links