Variant report

Variant	rs2897223
Chromosome Location	chr3:162109383-162109384
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12488584	0.86[ASN][1000 genomes]
rs12495563	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12496978	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12630952	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12633503	0.89[AMR][1000 genomes]
rs12635839	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12636042	0.90[AMR][1000 genomes]
rs12636085	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12639087	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2405749	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs2405751	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs9290118	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877721	chr3:161878713-162303276	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1006802	chr3:161921063-162599175	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv877724	chr3:162022959-162198135	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv877725	chr3:162036879-162216666	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1008920	chr3:162037850-162123354	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1002279	chr3:162061779-162156743	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv877726	chr3:162085820-162155076	Enhancers Flanking Active TSS Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv877727	chr3:162085820-162198135	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv877728	chr3:162085820-162236885	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv877729	chr3:162092216-162155076	Flanking Active TSS Enhancers Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv460924	chr3:162094430-162130691	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv592155	chr3:162094430-162130691	Enhancers Active TSS Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv460925	chr3:162096395-162142475	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv592156	chr3:162096395-162142475	Flanking Active TSS Enhancers Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv877730	chr3:162096395-162155076	Enhancers Flanking Active TSS Active TSS Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv877731	chr3:162096395-162198135	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:162108200-162110400	Enhancers	Hela-S3	cervix
2	chr3:162108200-162110600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr3:162108200-162110800	Enhancers	HSMM	muscle
4	chr3:162108600-162110400	Enhancers	Osteobl	bone
5	chr3:162108600-162110600	Enhancers	NHDF-Ad	bronchial
6	chr3:162108800-162109400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:162108800-162109600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:162109000-162109400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr3:162109000-162109400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:162109000-162109400	Active TSS	A549	lung
11	chr3:162109000-162109600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
12	chr3:162109000-162110400	Enhancers	HMEC	breast
13	chr3:162109000-162110600	Enhancers	NH-A	brain
14	chr3:162109200-162110600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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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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