Variant report

Variant	rs2197900
Chromosome Location	chr3:100791496-100791497
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1375509	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1375514	0.86[EUR][1000 genomes]
rs1597308	0.86[EUR][1000 genomes]
rs1839304	0.86[EUR][1000 genomes]
rs1868496	0.84[ASN][1000 genomes]
rs1900910	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2122226	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2197897	0.86[EUR][1000 genomes]
rs2317336	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2317338	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2595918	0.84[ASN][1000 genomes]
rs2595919	0.84[ASN][1000 genomes]
rs2713743	0.84[ASN][1000 genomes]
rs6794494	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9824042	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9835687	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9835849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872927	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9881220	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv877222	chr3:100715576-101038297	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv591176	chr3:100763611-100799644	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv591177	chr3:100767398-100799644	Enhancers Flanking Active TSS Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100787800-100792200	Enhancers	Hela-S3	cervix
2	chr3:100788000-100791800	Enhancers	Fetal Intestine Large	intestine
3	chr3:100788200-100791600	Enhancers	Fetal Intestine Small	intestine
4	chr3:100789000-100791600	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr3:100789000-100792200	Enhancers	Muscle Satellite Cultured Cells	--
6	chr3:100789200-100800800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:100790000-100791800	Enhancers	Stomach Mucosa	stomach
8	chr3:100790800-100791600	Enhancers	Duodenum Mucosa	Duodenum
9	chr3:100790800-100791600	Enhancers	HMEC	breast
10	chr3:100790800-100791800	Enhancers	NHEK	skin
11	chr3:100791200-100791800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:100791200-100791800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:100791200-100791800	Enhancers	Colon Smooth Muscle	Colon
14	chr3:100791200-100792000	Enhancers	Osteobl	bone
15	chr3:100791400-100791600	Active TSS	NHLF	lung
16	chr3:100791400-100792000	Flanking Active TSS	A549	lung
17	chr3:100791400-100792000	Flanking Active TSS	HUVEC	blood vessel

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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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