Variant report

Variant	rs213528
Chromosome Location	chr7:26909124-26909125
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs213524	0.81[AFR][1000 genomes]
rs213525	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs213533	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs213536	0.92[EUR][1000 genomes]
rs477924	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs514043	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs558263	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs591895	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs659131	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs668052	0.83[AMR][1000 genomes];0.87[EUR][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	nsv1025538	chr7:26482342-27376045	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
2	nsv538805	chr7:26482342-27376045	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs213528	HOXA2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26908000-26909400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr7:26908000-26909400	Enhancers	HMEC	breast
3	chr7:26908000-26909400	Enhancers	NHEK	skin
4	chr7:26908200-26909200	Enhancers	Muscle Satellite Cultured Cells	--
5	chr7:26908200-26909200	Enhancers	HSMM	muscle
6	chr7:26908800-26909200	Flanking Active TSS	Hela-S3	cervix
7	chr7:26908800-26909400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

Quick Search:

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

what's new

Quick links