Variant report

Variant	rs59661306
Chromosome Location	chr5:90383461-90383462
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:90382535..90385336-chr5:90386183..90388802,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs12109264	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs16869403	0.83[EUR][1000 genomes]
rs16869404	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16869414	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16869425	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1852731	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1986718	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2950849	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2950850	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2950851	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2950852	0.80[AMR][1000 genomes]
rs2950853	0.80[AMR][1000 genomes]
rs2973447	0.80[AMR][1000 genomes]
rs2973448	0.80[AMR][1000 genomes]
rs2973449	0.80[AMR][1000 genomes]
rs2973450	0.80[AMR][1000 genomes]
rs2973453	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2973454	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2973455	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2973456	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3112484	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3952745	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56137437	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56377639	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs58524182	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59654682	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61392689	0.97[ASN][1000 genomes]
rs66482530	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66608099	0.83[EUR][1000 genomes]
rs6874106	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73187190	0.97[ASN][1000 genomes]
rs73189008	0.80[AMR][1000 genomes];0.83[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	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv1024813	chr5:90321535-90870739	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
3	nsv537806	chr5:90321535-90870739	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90358400-90391000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr5:90360200-90386400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr5:90366600-90386600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr5:90369400-90386200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr5:90369600-90386000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr5:90370600-90397600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:90380000-90391800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr5:90382800-90384400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links