Variant report

Variant	rs56864172
Chromosome Location	chr5:113725346-113725347
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10076718	1.00[AMR][1000 genomes]
rs1058999	1.00[AMR][1000 genomes]
rs1457763	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1496387	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1965887	0.81[AFR][1000 genomes]
rs2047317	1.00[AMR][1000 genomes]
rs28572100	1.00[AMR][1000 genomes]
rs56202232	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58444912	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59344266	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60280422	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60765010	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60989400	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6859935	1.00[AMR][1000 genomes]
rs73779790	1.00[AMR][1000 genomes]
rs73779794	1.00[AMR][1000 genomes]
rs73782204	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73782216	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73782219	0.97[AFR][1000 genomes]
rs73782223	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs991776	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882728	chr5:113651694-113731423	Bivalent/Poised TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer 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	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

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:113713200-113730800	Weak transcription	Brain Anterior Caudate	brain
2	chr5:113715000-113727800	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr5:113722000-113725400	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr5:113722800-113725600	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr5:113723600-113725400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr5:113723800-113727400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr5:113723800-113728000	Weak transcription	Brain Hippocampus Middle	brain
8	chr5:113724400-113726400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr5:113725000-113726200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr5:113725000-113726400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr5:113725000-113726400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr5:113725000-113727800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr5:113725000-113728200	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr5:113725200-113726400	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr5:113725200-113726800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr5:113725200-113727400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr5:113725200-113730200	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr5:113725200-113730800	Enhancers	Liver	Liver

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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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