Variant report

Variant	rs6550880
Chromosome Location	chr3:24665747-24665748
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12635920	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12639068	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17014996	0.88[CEU][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6550881	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66815650	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72619931	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72619932	0.87[ASN][1000 genomes]
rs73143135	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7610415	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7631804	0.83[EUR][1000 genomes]
rs7640086	0.81[AFR][1000 genomes]
rs7645619	0.82[EUR][1000 genomes]
rs7651543	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][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	esv2757862	chr3:24652513-24942926	Enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759135	chr3:24652513-24942926	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv10254	chr3:24661741-24666296	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24658800-24667000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:24662800-24666000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr3:24663800-24666400	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr3:24664800-24666000	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:24664800-24666200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:24665000-24665800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:24665600-24665800	Bivalent Enhancer	Fetal Kidney	kidney
8	chr3:24665600-24666200	Enhancers	H9 Cell Line	embryonic stem cell

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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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