Variant report

Variant	rs17318666
Chromosome Location	chr19:41940342-41940343
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	chr19:41932057..41934259-chr19:41937890..41940958,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000177191	Chromatin interaction

Extended variants
information (count: 98 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs10409485	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10413735	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10416743	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10417311	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10417997	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10420556	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10422783	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10422956	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10432268	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1043413	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1077856	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10853751	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11083618	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11083619	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11667848	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11667908	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11668924	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11670583	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11670668	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11670725	0.84[EUR][1000 genomes]
rs11670757	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11880539	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11883104	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12602	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12709849	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12980966	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13344547	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13344563	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13345590	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13346603	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1473248	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs166925	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16975238	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17318596	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1967333	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1967334	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2231935	0.83[AMR][1000 genomes]
rs2231940	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2241706	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2241707	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2241708	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2241709	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2241710	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2241711	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2288871	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2304242	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2317131	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2569400	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2569754	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs284648	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs284649	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs284650	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs284651	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs284652	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs284654	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs284655	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs284656	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs284657	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs284658	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs284660	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs284661	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs284662	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs284663	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3213860	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3213861	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3745290	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3745292	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3786553	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3810174	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3810175	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3816037	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3826713	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4605279	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4674	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4802116	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4802117	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4802118	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4803461	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4803462	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4803463	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4803465	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4803467	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4803468	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4803469	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55986560	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58961854	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62117461	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62117462	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6508977	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7247332	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7255918	0.83[ASN][1000 genomes]
rs7258973	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8103531	0.84[EUR][1000 genomes]
rs8105833	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs878082	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs878083	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs892044	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9304593	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17318666	B3GNT8	cis	Nerve Tibial	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:41934000-41944800	Weak transcription	Hela-S3	cervix
2	chr19:41934400-41945000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr19:41934600-41944200	Weak transcription	Fetal Brain Male	brain
4	chr19:41934800-41945400	Weak transcription	Small Intestine	intestine
5	chr19:41935000-41945000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr19:41936600-41940600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr19:41936600-41944200	Strong transcription	A549	lung
8	chr19:41936800-41940400	Strong transcription	HUES48 Cell Line	embryonic stem cell
9	chr19:41936800-41940600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr19:41936800-41944200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr19:41936800-41944200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
12	chr19:41936800-41944200	Strong transcription	Primary T cells from cord blood	blood
13	chr19:41937000-41944200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr19:41937200-41944200	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr19:41938400-41943800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr19:41938600-41945000	Weak transcription	HSMMtube	muscle
17	chr19:41938800-41944800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr19:41938800-41945000	Weak transcription	Fetal Kidney	kidney
19	chr19:41938800-41945000	Weak transcription	NHDF-Ad	bronchial
20	chr19:41938800-41945200	Weak transcription	Right Atrium	heart
21	chr19:41939000-41940400	Strong transcription	Fetal Intestine Small	intestine
22	chr19:41939000-41942200	Weak transcription	HepG2	liver
23	chr19:41939000-41942200	Weak transcription	Osteobl	bone
24	chr19:41939000-41944800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr19:41939000-41944800	Weak transcription	NH-A	brain
26	chr19:41939000-41945000	Weak transcription	Primary B cells from cord blood	blood
27	chr19:41939200-41942200	Weak transcription	Brain Cingulate Gyrus	brain
28	chr19:41939200-41942200	Weak transcription	Brain Substantia Nigra	brain
29	chr19:41939200-41942200	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr19:41939200-41944600	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr19:41939200-41944600	Weak transcription	GM12878-XiMat	blood
32	chr19:41939200-41944800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr19:41939200-41944800	Weak transcription	Fetal Lung	lung
34	chr19:41939200-41944800	Weak transcription	HSMM	muscle
35	chr19:41939200-41945000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
36	chr19:41939200-41945000	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr19:41939400-41940400	Weak transcription	Primary hematopoietic stem cells	blood
38	chr19:41939400-41942000	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr19:41939400-41942200	Weak transcription	Aorta	Aorta
40	chr19:41939400-41942200	Weak transcription	Brain Anterior Caudate	brain
41	chr19:41939400-41942200	Weak transcription	Rectal Smooth Muscle	rectum
42	chr19:41939400-41942400	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr19:41939400-41942600	Weak transcription	Brain Angular Gyrus	brain
44	chr19:41939400-41943600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr19:41939400-41943600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr19:41939400-41943600	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr19:41939400-41943800	Weak transcription	Primary neutrophils fromperipheralblood	blood
48	chr19:41939400-41943800	Weak transcription	Esophagus	oesophagus
49	chr19:41939400-41944600	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr19:41939400-41944600	Weak transcription	HUVEC	blood vessel

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