Variant report

Variant	rs57401831
Chromosome Location	chr19:39517270-39517271
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10409280	0.80[ASN][1000 genomes]
rs10411234	0.88[ASN][1000 genomes]
rs12463075	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12609401	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12974080	0.87[ASN][1000 genomes]
rs12975482	0.81[ASN][1000 genomes]
rs12979968	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12981133	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12981826	0.87[EUR][1000 genomes]
rs12982067	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12983352	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1626050	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1627631	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1628376	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1628426	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1629253	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1651747	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16973058	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1864186	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1864188	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1869982	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34240661	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34366439	0.85[EUR][1000 genomes]
rs35000840	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35622111	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35940388	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4381706	0.89[EUR][1000 genomes]
rs4511651	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4802010	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs487356	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs516901	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs523890	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs523943	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs542464	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs553330	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs554932	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs561148	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs561329	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs572764	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57588219	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57724551	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs582575	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs582593	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs583529	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs583995	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs584806	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs584822	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs586107	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs586176	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59698424	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs598468	0.88[ASN][1000 genomes]
rs599230	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs602899	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61553368	0.90[ASN][1000 genomes]
rs618068	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62119464	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62119508	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62119510	0.90[ASN][1000 genomes]
rs62121528	0.86[EUR][1000 genomes]
rs62121529	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62121530	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62121531	0.80[ASN][1000 genomes]
rs62121532	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs662202	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs667911	0.83[EUR][1000 genomes]
rs678772	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs678848	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs679657	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs679732	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7246076	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs930100	0.82[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs57401831	FBXO27	cis	Skin Sun Exposed Lower leg	GTEx
rs57401831	FBXO27	cis	Artery Tibial	GTEx

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:39487200-39518200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr19:39502400-39518000	Weak transcription	Aorta	Aorta
3	chr19:39503600-39520200	Weak transcription	Liver	Liver
4	chr19:39507200-39517600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr19:39511200-39517600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr19:39512400-39518000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr19:39513000-39521600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr19:39513000-39521600	Weak transcription	Right Atrium	heart
9	chr19:39513200-39517400	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr19:39513600-39517400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr19:39514000-39517600	Weak transcription	NHEK	skin
12	chr19:39514000-39521400	Weak transcription	Pancreas	Pancrea
13	chr19:39514000-39522200	Weak transcription	Gastric	stomach
14	chr19:39514200-39517800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr19:39514200-39517800	Weak transcription	Placenta	Placenta
16	chr19:39514400-39517400	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr19:39514400-39517400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr19:39514400-39517800	Weak transcription	Brain Germinal Matrix	brain
19	chr19:39514400-39517800	Weak transcription	Left Ventricle	heart
20	chr19:39514400-39520400	Weak transcription	Fetal Intestine Large	intestine
21	chr19:39514400-39521600	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr19:39514400-39521800	Weak transcription	Colon Smooth Muscle	Colon
23	chr19:39514600-39517600	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr19:39514600-39517600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr19:39514600-39521400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr19:39514800-39517600	Weak transcription	Lung	lung
27	chr19:39514800-39518600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr19:39514800-39519600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr19:39514800-39520000	Strong transcription	Brain Cingulate Gyrus	brain
30	chr19:39515000-39518000	Strong transcription	Stomach Smooth Muscle	stomach
31	chr19:39515200-39521600	Weak transcription	Rectal Smooth Muscle	rectum
32	chr19:39515400-39517400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr19:39515400-39519000	Strong transcription	Brain Hippocampus Middle	brain
34	chr19:39515600-39517800	Strong transcription	Fetal Stomach	stomach
35	chr19:39515600-39518400	Strong transcription	Brain Inferior Temporal Lobe	brain
36	chr19:39515600-39518600	Strong transcription	Brain Substantia Nigra	brain
37	chr19:39515600-39518800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
38	chr19:39515800-39517600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr19:39515800-39518000	Strong transcription	H1 Cell Line	embryonic stem cell
40	chr19:39515800-39518400	Strong transcription	Adipose Nuclei	Adipose
41	chr19:39515800-39518600	Strong transcription	Ovary	ovary
42	chr19:39516000-39517600	Weak transcription	Pancreatic Islets	Pancreatic Islet
43	chr19:39516000-39518200	Strong transcription	Brain Angular Gyrus	brain
44	chr19:39516200-39521000	Weak transcription	K562	blood
45	chr19:39516200-39521600	Weak transcription	Right Ventricle	heart
46	chr19:39516400-39518000	Weak transcription	Fetal Heart	heart
47	chr19:39516400-39522200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr19:39516600-39518400	ZNF genes & repeats	A549	lung
49	chr19:39516600-39518600	Strong transcription	Brain Anterior Caudate	brain
50	chr19:39516800-39517800	Strong transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links