Variant report

Variant	rs55821055
Chromosome Location	chr2:12104002-12104003
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10520110	0.88[ASN][1000 genomes]
rs11901062	0.81[ASN][1000 genomes]
rs2716629	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2716642	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55643286	0.82[AFR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57404562	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58122677	0.81[ASN][1000 genomes]
rs58851677	0.89[ASN][1000 genomes]
rs59826552	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59883742	0.81[ASN][1000 genomes]
rs62115038	0.88[ASN][1000 genomes]
rs62115039	0.81[ASN][1000 genomes]
rs62115042	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62115045	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62115051	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62115052	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62115054	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6733012	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73915877	0.87[EUR][1000 genomes];0.91[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:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:12096400-12104200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr2:12101800-12104400	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr2:12102000-12105800	Weak transcription	GM12878-XiMat	blood
4	chr2:12102200-12107000	Weak transcription	Fetal Lung	lung
5	chr2:12102600-12105000	Enhancers	Colon Smooth Muscle	Colon
6	chr2:12103200-12108000	Weak transcription	Left Ventricle	heart
7	chr2:12103200-12108000	Weak transcription	Right Atrium	heart
8	chr2:12103800-12104400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr2:12103800-12104400	Enhancers	HMEC	breast
10	chr2:12104000-12104400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr2:12104000-12104400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr2:12104000-12104400	Enhancers	NHEK	skin
13	chr2:12104000-12106200	Weak transcription	K562	blood

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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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