Variant report

Variant	rs59611551
Chromosome Location	chr1:185227537-185227538
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr1:185226574-185227666	SK-N-SH	brain:	n/a	n/a
2	CEBPB	chr1:185226761-185227544	HCT-116	colon:	n/a	n/a
3	MAFK	chr1:185227483-185227986	Hela-S3	cervix:	n/a	n/a
4	BRCA1	chr1:185226802-185227828	Hela-S3	cervix:	n/a	n/a
5	RFX5	chr1:185227394-185227632	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr1:185227220..185229320-chr1:185231592..185234843,4	K562	blood:
2	chr1:185225715..185228034-chr1:185284675..185287044,2	MCF-7	breast:
3	chr1:185227168..185229528-chr1:185229569..185231674,3	K562	blood:

Variant related genes	Relation type
ENSG00000206640	TF binding region
ENSG00000116679	Chromatin interaction
ENSG00000273004	Chromatin interaction
ENSG00000233583	Chromatin interaction

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

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

rs_ID	r²[population]
rs10489582	1.00[EUR][1000 genomes]
rs10494582	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10798007	0.82[ASN][1000 genomes]
rs11802738	0.98[AFR][1000 genomes]
rs11804954	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11811583	0.88[AFR][1000 genomes]
rs12026308	1.00[EUR][1000 genomes]
rs12038977	1.00[EUR][1000 genomes]
rs12041641	1.00[EUR][1000 genomes]
rs12240005	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12240119	0.90[AMR][1000 genomes]
rs16823862	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16823869	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16823875	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16823884	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16823891	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2025228	1.00[EUR][1000 genomes]
rs2144664	1.00[EUR][1000 genomes]
rs3766713	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766716	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3895195	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41377350	1.00[EUR][1000 genomes]
rs57927210	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57960155	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58031282	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58292874	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58685423	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59035619	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59227355	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59818790	1.00[EUR][1000 genomes]
rs60064915	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61537994	1.00[EUR][1000 genomes]
rs61573899	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6672580	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6679946	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6680028	0.90[AFR][1000 genomes]
rs6687946	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6698620	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7515757	0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7516303	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7540216	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7555243	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs953701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs953702	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[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	nsv1001323	chr1:184525419-185315876	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv535222	chr1:184525419-185315876	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
3	nsv548398	chr1:185136458-186003094	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:185193800-185263600	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr1:185210600-185250400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr1:185214600-185229400	Weak transcription	NHDF-Ad	bronchial
4	chr1:185218800-185269400	Weak transcription	Pancreas	Pancrea
5	chr1:185226000-185227600	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr1:185226000-185228000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr1:185226600-185227600	Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr1:185226800-185228000	Enhancers	HMEC	breast
9	chr1:185226800-185231800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr1:185227000-185227600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr1:185227000-185228200	Enhancers	Fetal Heart	heart
12	chr1:185227000-185228400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr1:185227000-185247400	Weak transcription	Primary hematopoietic stem cells	blood
14	chr1:185227200-185230400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr1:185227400-185228400	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr1:185227400-185229600	Enhancers	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links