LTA

Basic Information

Gene Symbol	LTA
Entrez Id	4049
Position	chr6:3049492..3051714
Description	lymphotoxin alpha
Gene type	protein-coding

SNP Information

SNP	Position	Alelle	Gene	Annotation	Info	Or	Se	P-value	eQTL	Score^*
rs1041981	6:31540784	A/C	LTA	missense	0.985	0.97122	0.0112	0.009206		5
rs1800683	6:31540071	A/G	LTA	untranslated-5	0.985	0.97190	0.0112	0.01096		2b
rs2071590	6:31539768	A/G	LTA	near-gene-5	0.968	1.00100	0.0112	0.9299		5
rs2229092	6:31540757	A/C	LTA	missense	0.905	0.95925	0.0240	0.08262		5
rs2229094	6:31540556	T/C	LTA	missense	0.990	0.97083	0.0120	0.01393		4
rs2239704	6:31540141	A/C	LTA	intron,untranslated-5	0.987	1.00240	0.0109	0.8235		1f
rs2516312	6:31539435	A/G	LTA	near-gene-5	0.788	0.96686	0.0600	0.574		5
rs2844482	6:31539767	T/C	LTA	near-gene-5	0.940	1.02809	0.0153	0.06998		5
rs3093539	6:31538277	A/G	LTA	near-gene-5	0.915	1.03252	0.0390	0.4108		7
rs3093540	6:31539010	A/G	LTA	near-gene-5	0.994	1.03179	0.0236	0.1854		7
rs3093542	6:31540693	C/G	LTA	intron	0.995	1.09757	0.0297	0.001705		5
rs4647195	6:31540957	T/C	LTA	intron	0.934	0.96609	0.0392	0.3783		5
rs746868	6:31540429	C/G	LTA	intron	0.991	1.00310	0.0109	0.7776		4
rs909253	6:31540313	A/G	LTA	intron	0.986	1.02901	0.0112	0.01055		4
rs915654	6:31538497	A/T	LTA	near-gene-5	0.981	1.02994	0.0111	0.007995		6
SNP	Position	Alelle	Gene	Annotation	Info	Or	Se	P-value	eQTL	Score^*

Note: RegulomeDB score^*

score	supporting data	score	supporting data
1a	eQTL + TF binding + matched TF motif + matched DNase Footprint + DNase peak	6	other
2a	TF binding + matched TF motif + matched DNase Footprint + DNase peak	5	TF binding or DNase peak
1b	eQTL + TF binding + any motif + DNase Footprint + DNase peak	4	TF binding + DNase peak
2b	TF binding + any motif + DNase Footprint + DNase peak	3b	TF binding + matched TF motif
1c	eQTL + TF binding + matched TF motif + DNase peak	1f	eQTL + TF binding / DNase peak
2c	TF binding + matched TF motif + DNase peak	3a	TF binding + any motif + DNase peak
1d	eQTL + TF binding + any motif + DNase peak	1e	eQTL + TF binding + matched TF motif

CNV Information

The gene is not affected by CNV!

eQTL Information