Variant report

Variant	rs16889660
Chromosome Location	chr6:24744639-24744640
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Variant related genes	Relation type
ENSG00000224164	TF binding region
ENSG00000112308	Chromatin interaction
ENSG00000224164	Chromatin interaction
ENSG00000112312	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs16889658	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58047387	0.89[ASN][1000 genomes]
rs73394504	1.00[ASN][1000 genomes]
rs73394527	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394529	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73394546	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755514	1.00[JPT][hapmap]
rs7766456	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs807508	1.00[JPT][hapmap]
rs807521	1.00[JPT][hapmap]
rs807525	1.00[JPT][hapmap]
rs807534	1.00[JPT][hapmap]
rs807535	1.00[JPT][hapmap]
rs807545	1.00[JPT][hapmap]

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	nsv830609	chr6:24712086-24896647	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv428474	chr6:24714157-24797977	Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers 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	65 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24742000-24746800	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr6:24742400-24745400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
3	chr6:24743200-24745800	Enhancers	Primary B cells from peripheral blood	blood
4	chr6:24743800-24745600	Enhancers	Primary B cells from cord blood	blood
5	chr6:24744000-24744800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr6:24744000-24745000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:24744000-24745000	Enhancers	HMEC	breast
8	chr6:24744000-24745000	Enhancers	NHLF	lung
9	chr6:24744000-24745600	Enhancers	Hela-S3	cervix
10	chr6:24744200-24744800	Enhancers	Muscle Satellite Cultured Cells	--
11	chr6:24744200-24745000	Enhancers	NH-A	brain
12	chr6:24744200-24745000	Enhancers	NHDF-Ad	bronchial
13	chr6:24744400-24744800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:24744400-24745000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr6:24744400-24745600	Enhancers	GM12878-XiMat	blood
16	chr6:24744600-24744800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr6:24744600-24744800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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Input of quick search could be:

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

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