Variant report

Variant	rs13092220
Chromosome Location	chr3:112012143-112012144
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10804498	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10934164	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10934165	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13084103	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13084897	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4682393	0.83[EUR][1000 genomes]
rs57998879	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6764824	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6774756	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7636107	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9855755	0.81[EUR][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	nsv10307	chr3:111903974-112087686	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv877340	chr3:111936961-112013546	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv3949	chr3:111998512-112044060	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2290778	chr3:112012142-112012146	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112006600-112012400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:112008600-112012200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:112008600-112012400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:112009800-112012400	Weak transcription	Lung	lung
5	chr3:112010000-112012400	Weak transcription	Fetal Brain Male	brain
6	chr3:112010800-112012200	Weak transcription	Primary B cells from cord blood	blood
7	chr3:112011800-112012200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:112012000-112012200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:112012000-112012200	Enhancers	Adipose Nuclei	Adipose
10	chr3:112012000-112012200	Enhancers	Duodenum Mucosa	Duodenum
11	chr3:112012000-112012200	Enhancers	Rectal Mucosa Donor 29	rectum
12	chr3:112012000-112012200	Enhancers	GM12878-XiMat	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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