Variant report

Variant	rs2993535
Chromosome Location	chr1:212155192-212155193
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

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

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];0.89[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];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2788141	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2808380	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2808386	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2808388	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]
rs2808389	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2970586	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2970604	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[EUR][1000 genomes]
rs2993524	0.88[TSI][hapmap]
rs2993536	1.00[TSI][hapmap]
rs2993538	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2993539	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2993540	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs2993545	1.00[EUR][1000 genomes]
rs2993546	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs3009986	0.90[GIH][hapmap];1.00[TSI][hapmap]
rs3009991	1.00[EUR][1000 genomes]
rs3009994	0.90[GIH][hapmap];0.90[TSI][hapmap]
rs3009997	1.00[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];0.83[EUR][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];0.84[YRI][hapmap];0.87[EUR][1000 genomes]
rs4951436	0.83[EUR][1000 genomes]
rs6675701	1.00[CEU][hapmap];0.87[YRI][hapmap]
rs7545292	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2993535	LPGAT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212112000-212170200	Weak transcription	Small Intestine	intestine
2	chr1:212112800-212202000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr1:212113600-212170200	Weak transcription	Fetal Brain Male	brain
4	chr1:212114200-212185800	Weak transcription	Brain Angular Gyrus	brain
5	chr1:212123600-212159200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr1:212123800-212198200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr1:212125400-212170400	Weak transcription	Brain Anterior Caudate	brain
8	chr1:212125600-212159200	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr1:212125600-212160000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr1:212126000-212157000	Weak transcription	HUVEC	blood vessel
11	chr1:212129000-212167800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:212129400-212204000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr1:212130000-212157600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
14	chr1:212133200-212170600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr1:212133400-212157000	Weak transcription	Esophagus	oesophagus
16	chr1:212133400-212159400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr1:212133400-212188200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr1:212133600-212158400	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr1:212133600-212159000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr1:212133600-212159000	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr1:212133600-212159000	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr1:212133600-212159800	Weak transcription	Brain Substantia Nigra	brain
23	chr1:212133600-212170000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr1:212133600-212170200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr1:212133600-212174400	Weak transcription	Spleen	Spleen
26	chr1:212133800-212158400	Weak transcription	Fetal Intestine Small	intestine
27	chr1:212133800-212159200	Weak transcription	Thymus	Thymus
28	chr1:212133800-212160000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr1:212133800-212170000	Weak transcription	Pancreas	Pancrea
30	chr1:212133800-212208000	Weak transcription	Gastric	stomach
31	chr1:212134000-212159000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr1:212134000-212159000	Weak transcription	Brain Cingulate Gyrus	brain
33	chr1:212134000-212207600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr1:212134000-212207800	Weak transcription	Colonic Mucosa	Colon
35	chr1:212136600-212204000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
36	chr1:212137200-212162600	Strong transcription	Dnd41	blood
37	chr1:212138800-212157600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr1:212139000-212159400	Weak transcription	Ovary	ovary
39	chr1:212140400-212159400	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr1:212143200-212155400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
41	chr1:212144000-212155800	Strong transcription	Primary hematopoietic stem cells	blood
42	chr1:212145400-212155800	Strong transcription	K562	blood
43	chr1:212146000-212185600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr1:212146200-212156400	Strong transcription	Fetal Thymus	thymus
45	chr1:212147000-212155800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr1:212147000-212161200	Strong transcription	HUES64 Cell Line	embryonic stem cell
47	chr1:212147800-212156000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr1:212147800-212156400	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr1:212147800-212157400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr1:212147800-212157600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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