Variant report

Variant	rs637972
Chromosome Location	chr19:39481321-39481322
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

Variant related genes	Relation type
ENSG00000161243	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10403486	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10408493	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10415667	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12461981	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12608659	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13313727	0.81[AFR][1000 genomes]
rs1654334	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1654335	0.91[AFR][1000 genomes]
rs1654336	0.89[AFR][1000 genomes]
rs1654337	0.88[AFR][1000 genomes]
rs1672656	0.94[AFR][1000 genomes]
rs1672657	0.94[AFR][1000 genomes]
rs1672658	0.91[AFR][1000 genomes]
rs1672659	0.82[AFR][1000 genomes]
rs17795157	0.94[AFR][1000 genomes]
rs2318464	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2318465	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2318956	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28378068	0.84[EUR][1000 genomes]
rs34638406	0.86[ASN][1000 genomes]
rs3848622	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs473604	0.88[AFR][1000 genomes]
rs4801996	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs482342	0.94[AFR][1000 genomes]
rs483359	0.94[AFR][1000 genomes]
rs490761	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs500660	0.88[AFR][1000 genomes]
rs55722117	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55829324	0.88[AFR][1000 genomes]
rs56111444	0.88[AFR][1000 genomes]
rs564474	0.88[AFR][1000 genomes]
rs57214361	0.80[AFR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57810919	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs581978	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs586159	0.88[AFR][1000 genomes]
rs58762231	0.82[ASN][1000 genomes]
rs59268123	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs606372	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61265620	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs622528	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs635276	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs638015	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs649150	0.96[ASN][1000 genomes]
rs650027	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs678885	0.88[AFR][1000 genomes]
rs681145	0.88[AFR][1000 genomes]
rs7246595	0.85[ASN][1000 genomes]
rs7246678	0.86[ASN][1000 genomes]
rs7246775	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7248728	0.83[AFR][1000 genomes]
rs7249004	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7249730	0.83[AFR][1000 genomes]
rs7250349	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7251721	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7251820	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7258123	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7258386	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72623864	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7508413	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8105165	0.90[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
rs637972	FBXO27	cis	Esophagus Mucosa	GTEx
rs637972	CTB-189B5.3	cis	Esophagus Mucosa	GTEx
rs637972	FBXO27	cis	Skin Sun Exposed Lower leg	GTEx
rs637972	CTB-189B5.3	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:24 , 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	chr19:39480000-39481600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr19:39480000-39481600	Enhancers	Fetal Muscle Trunk	muscle
6	chr19:39480000-39481600	Weak transcription	Osteobl	bone
7	chr19:39480000-39483800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr19:39480000-39503400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr19:39480200-39481600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr19:39480200-39481600	Weak transcription	Adipose Nuclei	Adipose
11	chr19:39480200-39481600	Weak transcription	A549	lung
12	chr19:39480200-39481600	Weak transcription	HMEC	breast
13	chr19:39480200-39481600	Weak transcription	NHDF-Ad	bronchial
14	chr19:39480200-39481800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr19:39480200-39481800	Weak transcription	Hela-S3	cervix
16	chr19:39480200-39481800	Weak transcription	HSMM	muscle
17	chr19:39480200-39483800	Weak transcription	HSMMtube	muscle
18	chr19:39480200-39486600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr19:39480400-39481600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr19:39480800-39481800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr19:39480800-39482600	Bivalent Enhancer	HepG2	liver
22	chr19:39481000-39481400	Weak transcription	Fetal Muscle Leg	muscle
23	chr19:39481000-39481800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr19:39481000-39516000	Weak transcription	Brain Angular Gyrus	brain

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