Variant report

Variant	rs2800838
Chromosome Location	chr1:55950523-55950524
allele	A/C
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:18)

rs_ID	r²[population]
rs1165390	0.89[EUR][1000 genomes]
rs1165391	0.89[EUR][1000 genomes]
rs1695937	0.90[EUR][1000 genomes]
rs1695939	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1695958	0.82[ASN][1000 genomes]
rs1695960	0.82[ASN][1000 genomes]
rs1740118	0.82[ASN][1000 genomes]
rs1740123	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1740126	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1780520	0.93[EUR][1000 genomes]
rs1780524	0.90[EUR][1000 genomes]
rs1780526	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1780534	0.87[ASN][1000 genomes]
rs1980549	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2649629	0.86[CHB][hapmap];0.85[GIH][hapmap]
rs2748703	0.82[ASN][1000 genomes]
rs2800840	0.82[ASN][1000 genomes]
rs4325177	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv10184	chr1:55728755-56084833	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1008241	chr1:55922008-55972596	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:55944200-55950600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr1:55947000-55955200	Weak transcription	HSMM	muscle
3	chr1:55947400-55950600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr1:55947400-55956200	Weak transcription	Osteobl	bone
5	chr1:55947800-55956000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:55950000-55950800	Enhancers	Colon Smooth Muscle	Colon
7	chr1:55950200-55950800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr1:55950200-55950800	Enhancers	Rectal Smooth Muscle	rectum
9	chr1:55950200-55951000	Enhancers	Fetal Stomach	stomach
10	chr1:55950400-55955400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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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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