Variant report

Variant	rs650027
Chromosome Location	chr19:39481684-39481685
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:39463902..39468166-chr19:39481620..39485046,3	MCF-7	breast:
2	chr19:39480024..39481800-chr19:39521325..39523355,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000161243	Chromatin interaction
ENSG00000269190	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10403486	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10408493	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10415667	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10417436	0.81[CEU][hapmap]
rs11667641	0.81[CEU][hapmap]
rs11883422	0.81[CEU][hapmap]
rs12461981	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12608659	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12609806	0.81[CEU][hapmap];0.82[CHB][hapmap];0.81[CHD][hapmap];0.81[JPT][hapmap];0.81[TSI][hapmap]
rs13313727	0.84[AFR][1000 genomes]
rs1654334	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1654335	0.95[AFR][1000 genomes]
rs1654336	0.92[AFR][1000 genomes]
rs1654337	0.92[AFR][1000 genomes]
rs1672656	0.97[AFR][1000 genomes]
rs1672657	0.97[AFR][1000 genomes]
rs1672658	0.95[AFR][1000 genomes]
rs1672659	0.85[AFR][1000 genomes]
rs17795157	0.97[AFR][1000 genomes]
rs1840745	0.81[CEU][hapmap]
rs1840748	0.81[CEU][hapmap]
rs2318464	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2318465	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2318956	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28378068	0.84[EUR][1000 genomes]
rs34638406	0.86[ASN][1000 genomes]
rs3848622	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs473604	0.92[AFR][1000 genomes]
rs4801996	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4803193	0.81[CEU][hapmap]
rs482342	0.97[AFR][1000 genomes]
rs483359	0.97[AFR][1000 genomes]
rs490761	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs500660	0.92[AFR][1000 genomes]
rs55722117	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55829324	0.92[AFR][1000 genomes]
rs56111444	0.92[AFR][1000 genomes]
rs564474	0.92[AFR][1000 genomes]
rs57214361	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57810919	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs581978	0.95[CEU][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs586159	0.92[AFR][1000 genomes]
rs58762231	0.82[ASN][1000 genomes]
rs59268123	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs606372	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61265620	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs622528	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs635276	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs637972	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638015	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs649150	0.90[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.80[TSI][hapmap];0.96[ASN][1000 genomes]
rs6508843	0.81[CEU][hapmap]
rs678885	0.92[AFR][1000 genomes]
rs681145	0.92[AFR][1000 genomes]
rs7246595	0.85[ASN][1000 genomes]
rs7246678	0.86[ASN][1000 genomes]
rs7246775	0.85[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7248728	0.86[AFR][1000 genomes]
rs7249004	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7249730	0.86[AFR][1000 genomes]
rs7250349	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7251721	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7251820	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7258123	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7258386	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7259473	0.81[AMR][1000 genomes]
rs7259801	0.81[CEU][hapmap]
rs72623864	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7508413	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8104751	0.81[CEU][hapmap]
rs8105165	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8105298	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs650027	FBXO27	cis	Esophagus Mucosa	GTEx
rs650027	CTB-189B5.3	cis	Esophagus Mucosa	GTEx
rs650027	CTB-189B5.3	cis	Skin Sun Exposed Lower leg	GTEx
rs650027	FBXO27	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:39479000-39483200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr19:39479600-39482800	Enhancers	Placenta	Placenta
3	chr19:39479800-39481800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr19:39480000-39483800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr19:39480000-39503400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr19:39480200-39481800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr19:39480200-39481800	Weak transcription	Hela-S3	cervix
8	chr19:39480200-39481800	Weak transcription	HSMM	muscle
9	chr19:39480200-39483800	Weak transcription	HSMMtube	muscle
10	chr19:39480200-39486600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr19:39480800-39481800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr19:39480800-39482600	Bivalent Enhancer	HepG2	liver
13	chr19:39481000-39481800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr19:39481000-39516000	Weak transcription	Brain Angular Gyrus	brain
15	chr19:39481400-39482200	Enhancers	Fetal Muscle Leg	muscle
16	chr19:39481600-39481800	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr19:39481600-39482200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr19:39481600-39482200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr19:39481600-39482200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr19:39481600-39482200	Enhancers	Adipose Nuclei	Adipose
21	chr19:39481600-39482200	Enhancers	A549	lung
22	chr19:39481600-39482200	Enhancers	NHDF-Ad	bronchial
23	chr19:39481600-39482400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
24	chr19:39481600-39482400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
25	chr19:39481600-39482400	Enhancers	Osteobl	bone
26	chr19:39481600-39482600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr19:39481600-39484400	Enhancers	HMEC	breast

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