Variant report

Variant	rs73179740
Chromosome Location	chr5:89894348-89894349
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	chr5:89768356..89770490-chr5:89893117..89895355,2	MCF-7	breast:
2	chr5:89893486..89895205-chr5:89895612..89897548,2	K562	blood:

Variant related genes	Relation type
ENSG00000176055	Chromatin interaction
ENSG00000113356	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs41304890	1.00[AFR][1000 genomes]
rs58226739	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58741440	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58953839	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60195623	1.00[EUR][1000 genomes]
rs60513905	1.00[EUR][1000 genomes]
rs60598515	1.00[EUR][1000 genomes]
rs61201553	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6867812	1.00[EUR][1000 genomes]
rs6868030	1.00[EUR][1000 genomes]
rs6889020	1.00[EUR][1000 genomes]
rs73176094	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73176098	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73177824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73177825	1.00[AFR][1000 genomes]
rs73177840	1.00[AMR][1000 genomes]
rs73179713	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73179723	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73179752	1.00[EUR][1000 genomes]
rs73179753	1.00[EUR][1000 genomes]
rs73179756	1.00[EUR][1000 genomes]
rs73179757	1.00[EUR][1000 genomes]
rs73179761	1.00[EUR][1000 genomes]
rs73179774	1.00[AFR][1000 genomes]
rs73179777	1.00[AFR][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	nsv1021142	chr5:89102893-89897826	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers 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 miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv537804	chr5:89102893-89897826	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv432750	chr5:89410113-90137144	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv432751	chr5:89457044-90090444	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	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
6	nsv882366	chr5:89826726-89894564	Bivalent/Poised TSS Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
7	nsv933668	chr5:89854253-89999672	Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
8	nsv531965	chr5:89886550-90145002	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	9 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	chr5:89888600-89897400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr5:89892800-89909000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr5:89893000-89907800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr5:89893200-89902000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr5:89893400-89894600	Enhancers	Brain Cingulate Gyrus	brain
6	chr5:89893800-89894400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr5:89894000-89894400	Active TSS	Cortex derived primary cultured neurospheres	brain
8	chr5:89894000-89894600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr5:89894200-89894400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:89894200-89894600	Enhancers	Brain Angular Gyrus	brain
11	chr5:89894200-89894600	Active TSS	Brain Germinal Matrix	brain
12	chr5:89894200-89894600	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
13	chr5:89894200-89894600	Enhancers	Brain Substantia Nigra	brain
14	chr5:89894200-89894600	Enhancers	Fetal Brain Male	brain
15	chr5:89894200-89894800	Flanking Active TSS	Fetal Brain Female	brain

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