Variant report

Variant	rs73405002
Chromosome Location	chr6:28588630-28588631
allele	A/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	MYC	chr6:28588584-28588823	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:28583052..28585938-chr6:28586934..28589862,3	K562	blood:

Variant related genes	Relation type
SCAND3	TF binding region
ENSG00000232040	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1015810	0.86[ASN][1000 genomes]
rs11961493	0.82[EUR][1000 genomes]
rs11962141	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11964748	1.00[EUR][1000 genomes]
rs11966949	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11968771	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11969304	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11970404	0.86[ASN][1000 genomes]
rs2078422	0.86[ASN][1000 genomes]
rs2159274	1.00[ASN][1000 genomes]
rs2531802	0.86[ASN][1000 genomes]
rs2531812	1.00[ASN][1000 genomes]
rs2531819	0.86[ASN][1000 genomes]
rs28382592	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2859349	0.86[ASN][1000 genomes]
rs2859350	0.86[ASN][1000 genomes]
rs2859354	0.86[ASN][1000 genomes]
rs2859371	1.00[ASN][1000 genomes]
rs2859376	1.00[ASN][1000 genomes]
rs2859377	1.00[ASN][1000 genomes]
rs2859378	1.00[ASN][1000 genomes]
rs385908	0.86[ASN][1000 genomes]
rs400987	0.86[ASN][1000 genomes]
rs403774	0.86[ASN][1000 genomes]
rs423118	0.86[ASN][1000 genomes]
rs57083092	1.00[EUR][1000 genomes]
rs57147168	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58945456	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60137363	1.00[ASN][1000 genomes]
rs61540948	0.86[ASN][1000 genomes]
rs6923104	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73391136	0.86[ASN][1000 genomes]
rs73391164	0.86[ASN][1000 genomes]
rs73391166	0.86[ASN][1000 genomes]
rs73391169	0.86[ASN][1000 genomes]
rs73402995	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73403142	0.86[ASN][1000 genomes]
rs73403179	0.82[EUR][1000 genomes]
rs73403189	0.82[EUR][1000 genomes]
rs73404956	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73404986	0.91[EUR][1000 genomes]
rs73407126	0.86[ASN][1000 genomes]
rs73409118	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73409123	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73409134	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7742658	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751604	1.00[EUR][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	nsv1020689	chr6:28449137-28635171	Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv830621	chr6:28473951-28675709	Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv1031671	chr6:28575172-28678126	Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28584400-28588800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:28584600-28589200	Weak transcription	Placenta	Placenta
3	chr6:28587000-28589000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:28587000-28589000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr6:28587000-28589000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:28587600-28589000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr6:28588200-28589000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:28588400-28588800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:28588400-28589000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:28588600-28588800	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
11	chr6:28588600-28588800	Enhancers	HepG2	liver
12	chr6:28588600-28589000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell

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