Variant report

Variant	rs35996109
Chromosome Location	chr5:124387112-124387113
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:124385684..124387313-chr5:124391971..124393955,2	MCF-7	breast:

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

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

rs_ID	r²[population]
rs10455044	1.00[ASN][1000 genomes]
rs11950485	0.84[EUR][1000 genomes]
rs11957892	0.82[EUR][1000 genomes]
rs12152877	1.00[ASN][1000 genomes]
rs13156065	1.00[ASN][1000 genomes]
rs13156954	1.00[EUR][1000 genomes]
rs13166517	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13167251	1.00[ASN][1000 genomes]
rs13167636	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13169162	0.82[EUR][1000 genomes]
rs13170418	1.00[ASN][1000 genomes]
rs13171701	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13177504	1.00[ASN][1000 genomes]
rs13178310	1.00[ASN][1000 genomes]
rs13179795	1.00[ASN][1000 genomes]
rs13181069	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13185999	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs33997957	1.00[ASN][1000 genomes]
rs34190797	1.00[ASN][1000 genomes]
rs34285348	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34735920	1.00[ASN][1000 genomes]
rs34881137	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34886855	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34990521	1.00[ASN][1000 genomes]
rs35129313	1.00[ASN][1000 genomes]
rs35248489	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35456753	1.00[ASN][1000 genomes]
rs35655256	1.00[ASN][1000 genomes]
rs35728314	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35761814	1.00[ASN][1000 genomes]
rs35967749	1.00[ASN][1000 genomes]
rs35993487	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36056892	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs36109016	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4342331	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4836143	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57154044	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58039939	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60700802	0.84[EUR][1000 genomes]
rs6883243	0.84[EUR][1000 genomes]
rs71576805	1.00[ASN][1000 genomes]
rs71576807	1.00[ASN][1000 genomes]
rs71576809	1.00[ASN][1000 genomes]
rs71576810	1.00[ASN][1000 genomes]
rs71594396	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71594399	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9686495	0.83[EUR][1000 genomes];1.00[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	nsv882822	chr5:124250018-124449375	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv830474	chr5:124263628-124431299	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv4984	chr5:124377028-124401500	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:124379000-124388200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr5:124380600-124388400	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr5:124381800-124388600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr5:124382800-124388400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr5:124382800-124394200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr5:124382800-124394200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr5:124383000-124389400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr5:124385200-124387200	Enhancers	Brain Anterior Caudate	brain
9	chr5:124386800-124387200	Enhancers	Brain Cingulate Gyrus	brain
10	chr5:124386800-124387200	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr5:124386800-124387200	Enhancers	Brain Substantia Nigra	brain
12	chr5:124387000-124389800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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