Variant report

Variant	rs28808625
Chromosome Location	chr5:96525146-96525147
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	chr5:96520831..96523398-chr5:96524932..96527174,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10070105	0.86[AFR][1000 genomes]
rs10476561	0.81[AFR][1000 genomes]
rs10476701	0.82[AFR][1000 genomes]
rs10515256	0.88[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs13171520	0.83[ASN][1000 genomes]
rs1423501	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1423502	0.88[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1423503	0.88[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1423504	0.88[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs1423507	0.81[AFR][1000 genomes]
rs17630601	0.84[ASN][1000 genomes]
rs17630655	0.81[AFR][1000 genomes]
rs28496199	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34089335	0.81[AFR][1000 genomes]
rs34122360	0.86[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs35498938	0.84[ASN][1000 genomes]
rs4032064	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4073423	0.88[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4869151	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4869154	0.81[AFR][1000 genomes]
rs4869155	0.81[AFR][1000 genomes]
rs4869322	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4869324	0.81[AFR][1000 genomes]
rs56267018	0.84[AFR][1000 genomes]
rs67340817	0.86[AFR][1000 genomes]
rs6861811	0.88[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs72777631	0.83[ASN][1000 genomes]
rs72777640	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs72777653	0.81[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	nsv432755	chr5:95987984-96657483	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv598962	chr5:96057891-96893164	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv830412	chr5:96427305-96606619	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1019790	chr5:96471680-96980633	Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv537812	chr5:96471680-96980633	ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv882391	chr5:96496189-96533469	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
7	nsv882392	chr5:96496189-96546238	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
8	nsv882393	chr5:96496189-96567950	Flanking Bivalent TSS/Enh Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 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	chr5:96519200-96526200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:96520000-96528200	Weak transcription	NHEK	skin
3	chr5:96520000-96531600	Weak transcription	HSMM	muscle
4	chr5:96520000-96534800	Weak transcription	Left Ventricle	heart
5	chr5:96521600-96530000	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr5:96522800-96528400	Weak transcription	Primary B cells from cord blood	blood
7	chr5:96523000-96528200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr5:96523200-96525200	Weak transcription	Dnd41	blood

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