Variant report

Variant	rs16873327
Chromosome Location	chr5:43437630-43437631
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs16873361	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16873406	1.00[CEU][hapmap]
rs6451694	0.95[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs6867927	1.00[CEU][hapmap];0.88[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6873555	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs6880159	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6884864	0.88[AMR][1000 genomes]
rs6885326	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6886244	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6890108	0.85[LWK][hapmap];0.93[YRI][hapmap]
rs6890419	1.00[CEU][hapmap];0.88[TSI][hapmap]
rs6896527	1.00[CEU][hapmap];0.88[TSI][hapmap]
rs6896589	0.85[EUR][1000 genomes]
rs6897816	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7700826	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs7712723	1.00[CEU][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs7715976	1.00[CEU][hapmap];0.88[TSI][hapmap]
rs7716564	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7728139	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs16873327	MGC42105	cis	lymphoblastoid	seeQTL
rs16873327	NNT	cis	lymphoblastoid	seeQTL
rs16873327	Hs.482037	cis	multi-tissue	Pritchard
rs16873327	CXCR4	trans	brain	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:43426400-43443600	Weak transcription	Esophagus	oesophagus
2	chr5:43429400-43460200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:43433200-43454400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr5:43433200-43460200	Weak transcription	NHLF	lung
5	chr5:43433400-43443600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr5:43433400-43456000	Weak transcription	Brain Hippocampus Middle	brain
7	chr5:43433600-43443000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr5:43433600-43443400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr5:43433600-43452200	Weak transcription	Osteobl	bone
10	chr5:43433800-43483400	Weak transcription	Gastric	stomach
11	chr5:43436200-43443600	Weak transcription	Fetal Lung	lung
12	chr5:43436800-43443600	Weak transcription	Thymus	Thymus
13	chr5:43437200-43438400	Enhancers	HepG2	liver
14	chr5:43437200-43438800	Enhancers	Liver	Liver

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

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