Variant report

Variant	rs55942406
Chromosome Location	chr5:113817050-113817051
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11949478	1.00[AMR][1000 genomes]
rs17136613	1.00[AMR][1000 genomes]
rs17136662	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17136705	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56284400	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56789529	1.00[AMR][1000 genomes]
rs56976419	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57220263	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57876273	1.00[AMR][1000 genomes]
rs58946775	1.00[AMR][1000 genomes]
rs61514079	1.00[AMR][1000 genomes]
rs61530176	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6864302	1.00[AMR][1000 genomes]
rs6897063	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73247838	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73247848	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73247849	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779903	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs972756	1.00[AMR][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	nsv830451	chr5:113684301-113829833	Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv882729	chr5:113743628-114497708	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv830452	chr5:113798617-113975228	Enhancers Strong transcription Bivalent/Poised TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:113813800-113822200	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr5:113813800-113843400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr5:113814000-113833600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr5:113814800-113821800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:113814800-113823000	Weak transcription	Liver	Liver
6	chr5:113814800-113830600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr5:113815200-113821800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr5:113815400-113822800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr5:113816400-113820600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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