Variant report

Variant	rs2808388
Chromosome Location	chr1:212123221-212123222
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	chr1:212121203..212124081-chr1:212125772..212129102,3	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10863938	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs1586660	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap]
rs2000168	0.90[TSI][hapmap]
rs2788130	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2788135	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2788137	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2788138	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2788141	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2808380	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2808386	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2808389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2970586	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2970604	1.00[CEU][hapmap];0.83[YRI][hapmap];0.96[EUR][1000 genomes]
rs2993524	0.88[TSI][hapmap]
rs2993535	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2993536	1.00[TSI][hapmap]
rs2993538	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2993539	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2993540	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2993545	0.96[EUR][1000 genomes]
rs2993546	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs3009986	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs3009991	0.96[EUR][1000 genomes]
rs3009994	0.90[GIH][hapmap];0.90[TSI][hapmap]
rs3009997	0.96[EUR][1000 genomes]
rs3010008	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs3010014	0.88[GIH][hapmap];1.00[TSI][hapmap]
rs3010016	1.00[AMR][1000 genomes]
rs3010022	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs3010029	1.00[CEU][hapmap];0.90[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs6675701	1.00[CEU][hapmap]
rs7545292	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2808388	LPGAT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212103000-212132600	Weak transcription	Gastric	stomach
2	chr1:212103600-212132200	Weak transcription	Esophagus	oesophagus
3	chr1:212103800-212132200	Weak transcription	NHLF	lung
4	chr1:212104800-212124400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr1:212106200-212148600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr1:212106400-212132400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:212106400-212132600	Weak transcription	Right Ventricle	heart
8	chr1:212106400-212147800	Weak transcription	NH-A	brain
9	chr1:212107000-212132800	Weak transcription	Pancreas	Pancrea
10	chr1:212108000-212132400	Weak transcription	Spleen	Spleen
11	chr1:212109200-212132800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:212112000-212132200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr1:212112000-212170200	Weak transcription	Small Intestine	intestine
14	chr1:212112200-212124600	Weak transcription	Aorta	Aorta
15	chr1:212112400-212132200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr1:212112400-212132800	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr1:212112400-212133000	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr1:212112400-212148600	Weak transcription	NHDF-Ad	bronchial
19	chr1:212112600-212132200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr1:212112600-212133600	Weak transcription	Brain Hippocampus Middle	brain
21	chr1:212112600-212148200	Weak transcription	Colon Smooth Muscle	Colon
22	chr1:212112800-212202000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr1:212113400-212126600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr1:212113600-212125000	Weak transcription	Brain Anterior Caudate	brain
25	chr1:212113600-212138600	Weak transcription	Fetal Kidney	kidney
26	chr1:212113600-212151600	Weak transcription	Psoas Muscle	Psoas
27	chr1:212113600-212170200	Weak transcription	Fetal Brain Male	brain
28	chr1:212114200-212185800	Weak transcription	Brain Angular Gyrus	brain
29	chr1:212115400-212138800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr1:212115600-212125000	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr1:212115800-212124800	Weak transcription	Lung	lung
32	chr1:212115800-212124800	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr1:212115800-212132200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr1:212115800-212132400	Weak transcription	Brain Substantia Nigra	brain
35	chr1:212115800-212132600	Weak transcription	Placenta	Placenta
36	chr1:212115800-212144000	Weak transcription	Adipose Nuclei	Adipose
37	chr1:212115800-212151600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr1:212116400-212124400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr1:212116800-212125200	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr1:212117000-212139600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr1:212117200-212124000	Weak transcription	Duodenum Mucosa	Duodenum
42	chr1:212117800-212132600	Weak transcription	Left Ventricle	heart
43	chr1:212118000-212125000	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr1:212118200-212123800	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr1:212118400-212139000	Weak transcription	Osteobl	bone
46	chr1:212118600-212123600	Weak transcription	Fetal Intestine Small	intestine
47	chr1:212118600-212123800	Weak transcription	Fetal Lung	lung
48	chr1:212118600-212124000	Weak transcription	Fetal Intestine Large	intestine
49	chr1:212118600-212124400	Weak transcription	Brain Germinal Matrix	brain
50	chr1:212118600-212124400	Weak transcription	Ovary	ovary

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