Variant report

Variant	rs7259800
Chromosome Location	chr19:39514169-39514170
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:39511252..39514581-chr19:39516123..39518970,3	MCF-7	breast:
2	chr19:39511818..39514422-chr19:39747516..39749081,2	K562	blood:

Variant related genes	Relation type
ENSG00000161243	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10426382	0.91[EUR][1000 genomes]
rs12151095	0.93[EUR][1000 genomes]
rs12151101	0.87[EUR][1000 genomes]
rs12151263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12151266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12151268	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12151272	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55772809	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55773274	0.84[AMR][1000 genomes]
rs55785583	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs55854060	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55873651	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55894804	0.87[EUR][1000 genomes]
rs55919402	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55966336	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56063522	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56166490	0.83[AMR][1000 genomes]
rs56405021	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7248416	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7248895	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7255339	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7258997	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73032408	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73032437	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73047948	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs73047959	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73049875	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73049881	0.80[AMR][1000 genomes]
rs8102539	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8105813	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8107766	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8107781	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8108019	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7259800	FBXO27	cis	Esophagus Mucosa	GTEx
rs7259800	CTB-189B5.3	cis	Esophagus Mucosa	GTEx

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:39481000-39516000	Weak transcription	Brain Angular Gyrus	brain
2	chr19:39487200-39518200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr19:39496600-39515800	Weak transcription	Ovary	ovary
4	chr19:39498400-39516600	Weak transcription	A549	lung
5	chr19:39499400-39516600	Weak transcription	Brain Anterior Caudate	brain
6	chr19:39499800-39516800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr19:39500000-39515600	Weak transcription	Brain Substantia Nigra	brain
8	chr19:39501600-39514800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr19:39501800-39515800	Weak transcription	Adipose Nuclei	Adipose
10	chr19:39502000-39515400	Weak transcription	Fetal Intestine Small	intestine
11	chr19:39502200-39515600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr19:39502400-39518000	Weak transcription	Aorta	Aorta
13	chr19:39503000-39515400	Weak transcription	Brain Hippocampus Middle	brain
14	chr19:39503600-39520200	Weak transcription	Liver	Liver
15	chr19:39504800-39515800	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr19:39505200-39514800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr19:39505200-39515600	Weak transcription	Esophagus	oesophagus
18	chr19:39505400-39514800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr19:39506800-39515600	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr19:39506800-39517200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr19:39507200-39517600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr19:39507400-39515600	Weak transcription	Fetal Stomach	stomach
23	chr19:39510600-39516800	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr19:39511000-39515000	Weak transcription	Stomach Smooth Muscle	stomach
25	chr19:39511200-39517600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr19:39512400-39518000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr19:39512800-39515000	Weak transcription	GM12878-XiMat	blood
28	chr19:39513000-39521600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr19:39513000-39521600	Weak transcription	Right Atrium	heart
30	chr19:39513200-39517400	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr19:39513600-39517400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr19:39514000-39515800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr19:39514000-39516200	Enhancers	K562	blood
34	chr19:39514000-39517600	Weak transcription	NHEK	skin
35	chr19:39514000-39521400	Weak transcription	Pancreas	Pancrea
36	chr19:39514000-39522200	Weak transcription	Gastric	stomach

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