Variant report

Variant	rs16858077
Chromosome Location	chr2:12107141-12107142
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1595807	0.86[YRI][hapmap]
rs58143595	0.93[EUR][1000 genomes]
rs60510807	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs6708295	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6708806	0.80[EUR][1000 genomes]
rs6709058	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6712004	0.91[YRI][hapmap]
rs6715248	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs6715988	0.93[EUR][1000 genomes]
rs6734988	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6760198	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7593141	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv1003899	chr2:11789374-12248081	Strong transcription Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv833403	chr2:11944552-12125634	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:12103200-12108000	Weak transcription	Left Ventricle	heart
2	chr2:12103200-12108000	Weak transcription	Right Atrium	heart
3	chr2:12104400-12107400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:12104400-12107800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr2:12104400-12107800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr2:12104400-12107800	Weak transcription	HMEC	breast
7	chr2:12104400-12107800	Weak transcription	NHEK	skin
8	chr2:12105800-12108000	Weak transcription	Colon Smooth Muscle	Colon
9	chr2:12106000-12107600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr2:12106200-12108000	Enhancers	K562	blood
11	chr2:12107000-12108400	Enhancers	Fetal Lung	lung
12	chr2:12107000-12109200	Enhancers	Breast Myoepithelial Primary Cells	Breast

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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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