Variant report

Variant	rs10520009
Chromosome Location	chr4:150124907-150124908
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10021964	0.94[AFR][1000 genomes]
rs10029922	1.00[AMR][1000 genomes]
rs10471068	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10519997	1.00[AMR][1000 genomes]
rs17025793	0.90[AFR][1000 genomes]
rs17025861	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2033813	1.00[AMR][1000 genomes]
rs28415117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28580324	0.87[AFR][1000 genomes]
rs930393	1.00[AMR][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	nsv880247	chr4:150057979-150159936	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1022438	chr4:150066349-150196711	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv595687	chr4:150070596-150178533	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv880248	chr4:150092178-150200706	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10520009	CD4	trans	lymphoblastoid	seeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:150123400-150125600	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr4:150123600-150125000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr4:150123600-150127400	Enhancers	Fetal Heart	heart
4	chr4:150124400-150125000	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr4:150124600-150125200	Enhancers	Duodenum Mucosa	Duodenum

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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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