Variant report

Variant	rs28498943
Chromosome Location	chr5:116038789-116038790
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10058902	1.00[EUR][1000 genomes]
rs10067202	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10478304	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11953307	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11956773	1.00[EUR][1000 genomes]
rs13354807	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17140266	0.84[EUR][1000 genomes]
rs17140304	0.92[EUR][1000 genomes]
rs17140334	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17363522	0.92[EUR][1000 genomes]
rs58883622	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59529534	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61151549	1.00[EUR][1000 genomes]
rs61518662	0.84[EUR][1000 genomes]
rs6594980	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73263308	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7702584	1.00[EUR][1000 genomes]
rs7704769	0.99[AFR][1000 genomes]
rs7705654	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7709483	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7720391	0.92[EUR][1000 genomes]
rs7737847	1.00[EUR][1000 genomes]
rs9687139	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2763490	chr5:115918339-116138525	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv830456	chr5:115969066-116170718	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv527974	chr5:115987168-116303678	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv462403	chr5:115994775-116284378	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv599485	chr5:115994775-116284378	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1030056	chr5:116008971-116278725	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1033140	chr5:116035131-116314673	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:116032400-116040600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr5:116037400-116040200	Enhancers	GM12878-XiMat	blood
3	chr5:116037800-116040600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr5:116038200-116038800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:116038200-116040400	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr5:116038200-116041400	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr5:116038200-116041400	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr5:116038200-116042200	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr5:116038400-116038800	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr5:116038400-116038800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr5:116038400-116039200	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr5:116038400-116041000	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr5:116038400-116042000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr5:116038600-116041000	Enhancers	HUES48 Cell Line	embryonic stem cell

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