Variant report

Variant	rs6604041
Chromosome Location	chr1:93541276-93541277
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs2749734	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2785602	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2785605	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2815419	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs2815423	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs2815424	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs488345	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs495580	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs500349	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs502651	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs519319	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs539544	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs548751	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs580828	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs6604042	0.83[AMR][1000 genomes]
rs6703169	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs797594	0.94[AFR][1000 genomes];0.93[AMR][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	nsv1008602	chr1:93176811-93640808	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv830614	chr1:93465978-93678700	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv870775	chr1:93481640-93543119	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:93538200-93543800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr1:93539400-93543800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr1:93541200-93543600	Weak transcription	Stomach Mucosa	stomach
4	chr1:93541200-93543800	Enhancers	Primary hematopoietic stem cells short term culture	blood

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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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