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Gene-Chemical Interaction AnnotationsGene-Chemical Interaction Annotations
Gene-Chemical Interaction AnnotationsTerm | Qualifier | Evidence | With | Reference | Notes | Source | Original Reference(s) | 17beta-estradiol | increases expression | ISO | RGD:1345394 | 6480464 | Estradiol results in increased expression of LTA mRNA | CTD | PMID:23373633 | 2,2',4,4',5,5'-hexachlorobiphenyl | affects expression | ISO | RGD:1345394 | 6480464 | 2,4,5,2',4',5'-hexachlorobiphenyl affects the expression of LTA mRNA | CTD | PMID:20638727 | 2,3,7,8-tetrachlorodibenzodioxine | increases expression | ISO | RGD:733657 | 6480464 | Tetrachlorodibenzodioxin results in increased expression of LTA mRNA | CTD | PMID:12167310 | 2,3,7,8-tetrachlorodibenzodioxine | increases expression | EXP | | 6480464 | Tetrachlorodibenzodioxin results in increased expression of LTA mRNA | CTD | PMID:19520675 | 2,6-dichloroindophenol | multiple interactions | ISO | RGD:1345394 | 6480464 | [2,6-Dichloroindophenol co-treated with NQO1 protein polymorphism] results in increased expression of LTA mRNA | CTD | PMID:21034357 | acetylsalicylic acid | affects response to substance | ISO | RGD:1345394 | 6480464 | LTA gene SNP affects the susceptibility to Aspirin | CTD | PMID:16931544 | ammonium chloride | affects expression | EXP | | 6480464 | Ammonium Chloride affects the expression of LTA mRNA | CTD | PMID:16483693 | arsenic atom | multiple interactions | ISO | RGD:1345394 | 6480464 | [Arsenic co-treated with Fluorides] results in decreased expression of LTA mRNA | CTD | PMID:19962721 | arsenic atom | decreases expression | ISO | RGD:1345394 | 6480464 | Arsenic results in decreased expression of LTA mRNA | CTD | PMID:19962721 | asbestos | increases expression | ISO | RGD:1345394 | 6480464 | Asbestos results in increased expression of LTA mRNA | CTD | PMID:22398240 | cadmium dichloride | decreases methylation | EXP | | 6480464 | Cadmium Chloride results in decreased methylation of LTA promoter | CTD | PMID:22457795 | cobalt atom | multiple interactions | EXP | | 6480464 | [Nickel co-treated with Cobalt co-treated with Tungsten] results in increased expression of LTA mRNA | CTD | PMID:22198552 | curcumin | decreases expression | ISO | RGD:1345394 | 6480464 | Curcumin results in decreased expression of LTA mRNA | CTD | PMID:16101141 | curcumin | increases expression | ISO | RGD:1345394 | 6480464 | Curcumin results in increased expression of LTA mRNA | CTD | PMID:17198877 | cyclosporin A | multiple interactions | ISO | RGD:1345394 | 6480464 | Cyclosporine inhibits the reaction [enterotoxin A, Staphylococcal results in increased expression of LTA protein] | CTD | PMID:1371491 | dextran sulfate | increases expression | ISO | RGD:733657 | 6480464 | Dextran Sulfate results in increased expression of LTA mRNA | CTD | PMID:20079348 | diarsenic trioxide | increases expression | EXP | | 6480464 | arsenic trioxide results in increased expression of LTA mRNA | CTD | PMID:19730151 | diarsenic trioxide | increases expression | ISO | RGD:1345394 | 6480464 | arsenic trioxide results in increased expression of LTA mRNA | CTD | PMID:20458559 | furosemide | affects expression | EXP | | 6480464 | Furosemide affects the expression of LTA mRNA | CTD | PMID:17497460 | ibuprofen | affects response to substance | ISO | RGD:1345394 | 6480464 | LTA gene SNP affects the susceptibility to Ibuprofen | CTD | PMID:16931544 | indomethacin | multiple interactions | ISO | RGD:1345394 | 6480464 | Indomethacin inhibits the reaction [LTA protein results in increased expression of BIRC3 protein]; more ... | CTD | PMID:17873517 | iron atom | multiple interactions | EXP | | 6480464 | [Nickel co-treated with Iron co-treated with Tungsten] results in increased expression of LTA mRNA | CTD | PMID:22198552 | mycophenolic acid | increases expression | ISO | RGD:733657 | 6480464 | Mycophenolic Acid results in increased expression of LTA mRNA | CTD | PMID:19818335 | N-ethyl-N-nitrosourea | increases mutagenesis | ISO | RGD:733657 | 6480464 | Ethylnitrosourea results in increased mutagenesis of LTA gene | CTD | PMID:18384745 | nickel atom | multiple interactions | EXP | | 6480464 | [Nickel co-treated with Iron co-treated with Tungsten] results in increased expression of LTA mRNA; more ... | CTD | PMID:22198552 | ozone | multiple interactions | ISO | RGD:733657 | 6480464 | [H2-AB1 gene mutant form co-treated with H2-AA gene mutant form co-treated with H2-EB1 gene mutant form co-treated with H2-EB2 gene mutant form co-treated with H2-EA gene mutant form] inhibits the reaction [Ozone results in increased expression of LTA mRNA]; more ... | CTD | PMID:20032013 | ozone | increases expression | ISO | RGD:733657 | 6480464 | Ozone results in increased expression of LTA mRNA | CTD | PMID:20032013 | ozone | decreases response to substance | ISO | RGD:733657 | 6480464 | LTA gene mutant form results in decreased susceptibility to Ozone | CTD | PMID:20032013 | paracetamol | increases expression | ISO | RGD:733657 | 6480464 | Acetaminophen results in increased expression of LTA mRNA | CTD | PMID:12540782 | paracetamol | multiple interactions | ISO | RGD:733657 | 6480464 | O(2)-vinyl-1-(pyrrolidin-1-yl)diazen-1-ium-1,2-diolate inhibits the reaction [Acetaminophen results in increased expression of LTA mRNA] | CTD | PMID:12540782 | paracetamol | affects response to substance | ISO | RGD:1345394 | 6480464 | LTA polymorphism affects the susceptibility to Acetaminophen | CTD | PMID:9696492 | paraquat | decreases expression | ISO | RGD:1345394 | 6480464 | Paraquat results in decreased expression of LTA mRNA | CTD | PMID:18836921 | potassium dichromate | increases expression | ISO | RGD:1345394 | 6480464 | Potassium Dichromate results in increased expression of LTA mRNA | CTD | PMID:18332044 | silicon dioxide | decreases expression | ISO | RGD:1345394 | 6480464 | Silicon Dioxide results in decreased expression of LTA mRNA | CTD | PMID:19428942 | sterigmatocystin | increases expression | ISO | RGD:733657 | 6480464 | Sterigmatocystin results in increased expression of LTA mRNA | CTD | PMID:19818335 | tacrolimus hydrate | multiple interactions | ISO | RGD:1345394 | 6480464 | Tacrolimus inhibits the reaction [enterotoxin A, Staphylococcal results in increased expression of LTA protein] | CTD | PMID:1371491 | toluene 2,4-diisocyanate | multiple interactions | ISO | RGD:733657 | 6480464 | TNF protein affects the reaction [Toluene 2,4-Diisocyanate results in increased expression of LTA mRNA] | CTD | PMID:12356572 | toluene 2,4-diisocyanate | increases expression | ISO | RGD:733657 | 6480464 | Toluene 2,4-Diisocyanate results in increased expression of LTA mRNA | CTD | PMID:12356572 | trichloroethene | decreases expression | ISO | RGD:733657 | 6480464 | Trichloroethylene results in decreased expression of LTA mRNA | CTD | PMID:22407948 | troglitazone | decreases expression | ISO | RGD:733657 | 6480464 | troglitazone results in decreased expression of LTA mRNA | CTD | PMID:17569031 | troglitazone | increases expression | ISO | RGD:1345394 | 6480464 | troglitazone results in increased expression of LTA mRNA | CTD | PMID:19631733 | tungsten atom | multiple interactions | EXP | | 6480464 | [Nickel co-treated with Iron co-treated with Tungsten] results in increased expression of LTA mRNA; more ... | CTD | PMID:22198552 | vincristine | increases response to substance | ISO | RGD:1345394 | 6480464 | LTA gene SNP results in increased susceptibility to Vincristine | CTD | PMID:20864405 | zinc dichloride | decreases expression | ISO | RGD:1345394 | 6480464 | zinc chloride results in decreased expression of LTA mRNA | CTD | PMID:19428942 | zinc dichloride | increases expression | ISO | RGD:1345394 | 6480464 | zinc chloride results in increased expression of LTA mRNA | CTD | PMID:21540303 | zinc pyrithione | increases expression | ISO | RGD:1345394 | 6480464 | zinc pyrithione results in increased expression of LTA mRNA | CTD | PMID:21424779 | | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Gene Ontology AnnotationsMolecular Pathway Annotations| External Database Links | |
| KEGG Pathway | Cytokine-cytokine receptor interaction |
| Herpes simplex infection | |
| HTLV-I infection | |
| NF-kappa B signaling pathway | |
| Type I diabetes mellitus | |
| Pathway Interaction Database | IL2 signaling events mediated by STAT5 (PID:200184) |
| IL4-mediated signaling events (PID:200022) | |
Phenotype AnnotationsDisease Annotations
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Gene-Chemical Interaction Annotations
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Gene Ontology Annotations
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Molecular Pathway Annotations
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| External Database Links | |
| KEGG Pathway | Cytokine-cytokine receptor interaction |
| Herpes simplex infection | |
| HTLV-I infection | |
| NF-kappa B signaling pathway | |
| Type I diabetes mellitus | |
| Pathway Interaction Database | IL2 signaling events mediated by STAT5 (PID:200184) |
| IL4-mediated signaling events (PID:200022) | |
Phenotype AnnotationsReferences - curated| 1. |
Bouqbis L, etal., Tissue Antigens. 2003 Jan;61(1):72-9. |
| 2. |
Braun J, etal., Eur J Clin Invest. 1998 Jul;28(7):538-42. |
| 3. |
Buckova D, etal., J Investig Allergol Clin Immunol. 2002;12(3):192-7. |
| 4. |
Cartford MC, etal., J Neurosci 2002 Jul 15;22(14):5813-6. |
| 5. |
Corvol H, etal., J Cyst Fibros. 2012 Jan;11(1):63-7. Epub 2011 Oct 10. |
| 6. |
Dai RP, etal., Eur J Heart Fail. 2004 Oct;6(6):693-703. |
| 7. |
Diab A, etal., J Neuropathol Exp Neurol. 1997 Jun;56(6):641-50. |
| 8. |
Ermert M, etal., Cytokine. 2003 May;22(3-4):89-100. |
| 9. |
Fernandez-Real JM, etal., Biochem Biophys Res Commun. 1997 Jul 30;236(3):829-32. |
| 10. |
Feugeas JP, etal., Diabetes Metab. 1997 Sep;23(4):295-301. |
| 11. |
Garcia-Elorriaga G, etal., Inflammation. 2010 Aug;33(4):267-75. |
| 12. |
Gong MN, etal., Eur Respir J. 2005 Sep;26(3):382-9. |
| 13. |
Hamid YH, etal., Diabetologia. 2005 Mar;48(3):445-51. Epub 2005 Feb 24. |
| 14. |
Huang SC, etal., Pediatr Neonatol. 2008 Apr;49(2):30-4. |
| 15. |
Issazadeh S, etal., J Neuroimmunol. 1995 Sep;61(2):205-12. |
| 16. |
Kwon J, etal., Gene 1993 Oct 15;132(2):227-36. |
| 17. |
Laxton R, etal., Genes Immun. 2005 Sep;6(6):539-41. |
| 18. |
Lindholm E, etal., PLoS One. 2008 Jun 25;3(6):e2546. |
| 19. |
Liu SK, etal., Lymphokine Cytokine Res. 1991 Jun;10(3):189-94. |
| 20. |
Mak JC, etal., Int Arch Allergy Immunol. 2007;144(2):114-22. Epub 2007 May 24. |
| 21. |
Malley SE and Vizzard MA, Physiol Genomics. 2002;9(1):5-13. |
| 22. |
MGD data from the GO Consortium |
| 23. |
Migita O, etal., Clin Exp Allergy. 2005 Jun;35(6):790-6. |
| 24. |
Miyaguchi S, etal., Clin Immunol. 2001 Jan;98(1):119-24. |
| 25. |
Mrazek F, etal., Tissue Antigens. 2005 Feb;65(2):163-71. |
| 26. |
Nakayama T, etal., Am J Hypertens. 2004 Nov;17(11 Pt 1):1045-9. |
| 27. |
Namba Y and Waksman BH, J Immunol. 1975 Oct;115(4):1018-22. |
| 28. |
NCBI rat LocusLink and RefSeq merged data July 26, 2002 |
| 29. |
Niwa Y, etal., Gynecol Oncol. 2007 Mar;104(3):586-90. Epub 2006 Oct 11. |
| 30. |
Ozaki K, etal., Nat Genet. 2002 Dec;32(4):650-4. Epub 2002 Nov 11. |
| 31. |
Pipeline to import KEGG annotations from KEGG into RGD Pathway Ontology |
| 32. |
Pipeline to import Pathway Interaction Database annotations from NCI into RGD |
| 33. |
Qiu J, etal., J Neurosci Res. 2004 Jul 1;77(1):108-18. |
| 34. |
RGD automated data pipeline |
| 35. |
RGD automated import pipeline for gene-chemical interactions |
| 36. |
RGD Automated Pipelines |
| 37. |
Schreyer SA, etal., J Biol Chem. 2002 Apr 5;277(14):12364-8. Epub 2002 Jan 23. |
| 38. |
Shin HD, etal., Ann N Y Acad Sci. 2008 Dec;1150:76-85. |
| 39. |
Stayoussef M, etal., Clin Vaccine Immunol. 2008 Feb;15(2):379-81. Epub 2007 Nov 7. |
| 40. |
Takeuchi K, etal., Laryngoscope. 2000 Oct;110(10 Pt 1):1711-4. |
| 41. |
Tran TA, etal., Cancer. 1998 Jul 15;83(2):276-82. |
| 42. |
Um JY, etal., J Mol Neurosci. 2003;21(2):167-71. |
| 43. |
Vendrell J, etal., Metabolism. 1995 Jun;44(6):691-4. |
| 44. |
Wei L, etal., Neuroscience. 2010 Jun 16;168(1):288-99. Epub 2010 Mar 15. |
| 45. |
Yamada A, etal., J Mol Med. 2004 Jul;82(7):477-83. Epub 2004 Jun 3. |
| 46. |
Yamaguchi Y, etal., Transplantation. 1998 Oct 15;66(7):894-902. |
| 47. |
Yamasaki Y, etal., Diabetes Care. 2006 Nov;29(11):2445-51. |
| 48. |
Zeggini E, etal., Diabetologia. 2005 Oct;48(10):2013-7. Epub 2005 Aug 18. |
References - uncuratedRGD Disease Portals| Lta has been annotated in the following RGD Disease Portals. |
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Candidate Gene StatusComparative Map Data| Lta (Rattus norvegicus) |
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| LTA (Homo sapiens) |
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| Lta (Mus musculus) |
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Position Markers| AI113237 |
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QTLs in Region (RGSC Genome Assembly v3.4)| The following QTLs overlap with this region. |  | Full Report | | CSV | | TAB | | Printer | | Gviewer |
Nucleotide Sequences| Nucleotide RefSeqs | NM_080769 | (Get FASTA) | Search GEO for Microarray Profiles |
| GenBank Nucleotide | AABR06099883 | (Get FASTA) | Search GEO for Microarray Profiles |
| AAHX01099608 | (Get FASTA) | Search GEO for Microarray Profiles | |
| BX883046 | (Get FASTA) | Search GEO for Microarray Profiles | |
| CH474121 | (Get FASTA) | Search GEO for Microarray Profiles | |
| L00981 | (Get FASTA) | Search GEO for Microarray Profiles |
| RefSeq Acc Id: | NM_080769 | ||||||||||||||||||||
| RefSeq Status: | VALIDATED | ||||||||||||||||||||
| Type: | CODING | ||||||||||||||||||||
| Protein Acc Id: | NP_542947 | ||||||||||||||||||||
| Peptide Label: | precursor | ||||||||||||||||||||
| Position: |
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Protein Sequences| Protein RefSeqs | NP_542947 | (Get FASTA) |
| GenBank Protein | AAA16276 | (Get FASTA) |
| CAE84004 | (Get FASTA) | |
| EDL83549 | (Get FASTA) | |
| Q06332 | (Get FASTA) |
Strain Sequence Variants
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External Database Links| Database | Acc Id | Source(s) |
| Ensembl Genes | ENSRNOG00000000838 | ENTREZGENE, UniProtKB/Swiss-Prot |
| Ensembl Protein | ENSRNOP00000001111 | ENTREZGENE, UniProtKB/Swiss-Prot |
| Ensembl Transcript | ENSRNOT00000001111 | ENTREZGENE, UniProtKB/Swiss-Prot |
| Entrez Gene | 25008 | ENTREZGENE |
| Gene3D-CATH | Tumour_necrosis_fac-like | UniProtKB/Swiss-Prot |
| Germonline | ENSRNOG00000000838 | UniProtKB/Swiss-Prot |
| HomoloGene Group ID | 497 | ENTREZGENE |
| InterPro | TNF_a/b/c | UniProtKB/Swiss-Prot |
| TNF_beta | UniProtKB/Swiss-Prot | |
| TNF_CS | UniProtKB/Swiss-Prot | |
| TNF_family | UniProtKB/Swiss-Prot | |
| Tumour_necrosis_fac-like | UniProtKB/Swiss-Prot | |
| IPI | IPI00192415 | UniProtKB/Swiss-Prot |
| KEGG Report | rno:25008 | ENTREZGENE, UniProtKB/Swiss-Prot |
| Pfam | TNF | UniProtKB/Swiss-Prot |
| PharmGKB | LTA | RGD |
| PRINTS | TNECROSISFCT | UniProtKB/Swiss-Prot |
| TNFBETA | UniProtKB/Swiss-Prot | |
| PROSITE | TNF_1 | UniProtKB/Swiss-Prot |
| TNF_2 | UniProtKB/Swiss-Prot | |
| SMART | TNF | UniProtKB/Swiss-Prot |
| Superfamily-SCOP | TNF_like | UniProtKB/Swiss-Prot |
| UniGene | Rn.160577 | ENTREZGENE |
| UniProt | TNFB_RAT | UniProtKB/Swiss-Prot |
Nomenclature History| Date | Current Symbol | Current Name | Previous Symbol | Previous Name | Description | Reference | Status |
|---|---|---|---|---|---|---|---|
| 2008-09-18 | Lta | lymphotoxin alpha (TNF superfamily, member 1) | Lta | lymphotoxin A | Nomenclature updated to reflect human and mouse nomenclature | 10779 | APPROVED |
| 2002-11-06 | Lta | lymphotoxin A | Lymphotoxin alpha (formerly tumor necrosis factor, beta) | Name updated | 2225 | APPROVED | |
| 2002-06-10 | Lta | Lymphotoxin alpha (formerly tumor necrosis factor, beta) | Symbol and Name status set to approved | 1490 | APPROVED |
RGD Curation Notes| Note Type | Note | Reference |
|---|---|---|
| gene_mapping | found within the rat major histocompatibility RT1 complex | 1300431 |
| gene_regulation | expression decreased in cerebellum from F344 animals (20-month-old) on 6 weeks of a spinach-enriched diet | 628312 |
| gene_regulation | expression was decreased in cerebellum from F344 animals (20-month-old) on 6 weeks of a spinach-enriched diet | 628312 |
| gene_transcript | gene is tandemly arranged 5' to TNF-alpha | 729032 |
| More on Lta | |
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Entrez Gene |
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Ensembl Gene |
| Genome Browser |
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NCBI Map Viewer |
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Vista |
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Vista + UCSC |
| RGD Object Information | |
| RGD ID: | 3020 |
| Created: | 2000-05-25 |
| Species: | Rattus norvegicus |
| Last Modified: | 2013-04-16 |
| Status: | ACTIVE |
© Bioinformatics Program, HMGC at the Medical College of Wisconsin
RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.