Lta (lymphotoxin A) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Lta (lymphotoxin A) Mus musculus
Analyze
Symbol: Lta
Name: lymphotoxin A
RGD ID: 733657
MGI Page MGI
Description: Predicted to enable cytokine activity. Acts upstream of or within several processes, including lymph node development; positive regulation of immune response; and positive regulation of type II interferon production. Predicted to be located in plasma membrane. Predicted to be active in extracellular space. Is expressed in several structures, including extraembryonic component; gut; hemolymphoid system; liver; and reproductive system. Human ortholog(s) of this gene implicated in several diseases, including artery disease (multiple); autoimmune disease (multiple); glucose metabolism disease (multiple); leishmaniasis (multiple); and lung disease (multiple). Orthologous to human LTA (lymphotoxin alpha).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hlb38; hlb382; L; LT; LT-; LT-[; LT-[a]; LT-alpha; LT[; LT[a]; LTalpha; Ltx; lymph; lymphotoxin alpha; lymphotoxin-alpha; MGC117668; Tnf; TNF beta; TNF-be; TNF-beta; Tnfb; Tnfsf; TNFSF1; Tnfsf1b; Tnlg1e; tumor necrosis factor ligand 1e; tumor necrosis factor ligand superfamily member 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,422,141 - 35,424,568 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1735,422,141 - 35,424,327 (-)EnsemblGRCm39 Ensembl
GRCm381735,203,165 - 35,205,578 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,203,165 - 35,205,351 (-)EnsemblGRCm38mm10GRCm38
MGSCv371735,340,110 - 35,342,296 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361734,811,215 - 34,813,235 (-)NCBIMGSCv36mm8
Celera1738,299,868 - 38,302,049 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.59NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
adult respiratory distress syndrome  (ISO)
allergic disease  (ISO)
arteriosclerosis  (IAGP)
asthma  (ISO)
breast cancer  (ISO)
Cachexia  (ISO)
carotid artery disease  (ISO)
cerebral infarction  (ISO)
cerebral malaria  (IMP)
chorioamnionitis  (ISO)
contact dermatitis  (IMP)
coronary artery disease  (ISO)
cutaneous leishmaniasis  (ISO)
cystic fibrosis  (ISO)
cystitis  (ISO)
dermatitis herpetiformis  (ISO)
Diabetic Nephropathies  (ISO)
diabetic retinopathy  (ISO)
endometrial cancer  (ISO)
erythema nodosum  (ISO)
esophagus squamous cell carcinoma  (ISO)
Experimental Autoimmune Encephalomyelitis  (ISO)
Graves' disease  (ISO)
hepatic encephalopathy  (ISO)
Herpes Simplex Encephalitis  (IMP)
high grade glioma  (ISO)
hyperinsulinism  (ISO)
hypertension  (ISO)
Hypertriglyceridemia  (ISO)
Insulin Resistance  (ISO)
leprosy  (ISO)
lung non-small cell carcinoma  (ISO)
malignant mesothelioma  (ISO)
megacolon  (ISO)
melanoma  (ISO)
mucocutaneous leishmaniasis  (ISO)
myocardial infarction  (ISO)
neovascular inflammatory vitreoretinopathy  (ISO)
proteasome-associated autoinflammatory syndrome 1  (ISO)
psoriasis  (ISO)
psoriatic arthritis  (ISO)
pulmonary sarcoidosis  (ISO)
pulmonary tuberculosis  (ISO)
pustulosis of palm and sole  (ISO)
Sepsis  (ISO)
sinusitis  (ISO)
Sjogren's syndrome  (IMP,ISO)
Sudden Hearing Loss  (ISO)
systemic scleroderma  (ISO)
Transplant Rejection  (ISO)
trichinosis  (IMP)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (ISO)
typhoid fever  (ISO)
visceral leishmaniasis  (IMP,ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (ISO)
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
1-nitropyrene  (ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP,ISO)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dichloroindophenol  (ISO)
3-chloropropane-1,2-diol  (ISO)
3-phenylprop-2-enal  (ISO)
4,4'-sulfonyldiphenol  (ISO)
acetylsalicylic acid  (ISO)
acrylamide  (ISO)
alpha-Zearalanol  (ISO)
ammonium chloride  (ISO)
amphibole asbestos  (ISO)
aripiprazole  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
asperentin  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bromoacetate  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
CGP 52608  (ISO)
cisplatin  (EXP,ISO)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
Cuprizon  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
deoxynivalenol  (EXP)
dextran sulfate  (EXP)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
dimethylarsinic acid  (EXP)
flavonoids  (ISO)
furosemide  (ISO)
gemcitabine  (ISO)
ibuprofen  (ISO)
indometacin  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
iron(2+) sulfate (anhydrous)  (ISO)
L-arginine  (ISO)
lead nitrate  (EXP)
lipopolysaccharide  (EXP,ISO)
methylarsonic acid  (EXP)
mycophenolic acid  (EXP)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-ethyl-N-nitrosourea  (EXP)
nickel atom  (ISO)
nitroprusside  (ISO)
ozone  (EXP,ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
PCB138  (EXP)
poly(I:C)  (ISO)
potassium dichromate  (ISO)
progesterone  (EXP)
resveratrol  (ISO)
rifaximin  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (EXP)
sodium arsenite  (EXP,ISO)
sterigmatocystin  (EXP)
tacrolimus hydrate  (ISO)
TMC-120A  (EXP)
toluene 2,4-diisocyanate  (EXP)
trichloroethene  (EXP)
troglitazone  (EXP,ISO)
tungsten  (ISO)
usnic acid  (ISO)
vincristine  (ISO)
zinc dichloride  (ISO)
zinc pyrithione  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
extracellular space  (IBA,IEA,ISO)
plasma membrane  (TAS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal circulating tumor necrosis factor level  (IAGP)
abnormal class switch recombination  (IAGP)
abnormal cytokine secretion  (IAGP)
abnormal gamma-delta T cell morphology  (IAGP)
abnormal gut-associated lymphoid tissue morphology  (IAGP)
abnormal humoral immune response  (IAGP)
abnormal immune serum protein physiology  (IAGP)
abnormal immune system morphology  (IAGP)
abnormal immune system organ morphology  (IAGP)
abnormal leukocyte cell number  (IAGP)
abnormal lymph node morphology  (IAGP)
abnormal lymph node primary follicle morphology  (IAGP)
abnormal lymph organ development  (IAGP)
abnormal lymphocyte morphology  (IAGP)
abnormal lymphopoiesis  (IAGP)
abnormal mucosa-associated lymphoid tissue morphology  (IAGP)
abnormal pancreatic islet morphology  (IAGP)
abnormal retina morphology  (IAGP)
abnormal sleep pattern  (IAGP)
abnormal spleen marginal zone morphology  (IAGP)
abnormal spleen morphology  (IAGP)
abnormal spleen periarteriolar lymphoid sheath morphology  (IAGP)
abnormal spleen white pulp morphology  (IAGP)
abnormal thymus epithelium morphology  (IAGP)
abnormal thymus medulla morphology  (IAGP)
absent axillary lymph nodes  (IAGP)
absent brachial lymph nodes  (IAGP)
absent cervical lymph nodes  (IAGP)
absent inguinal lymph nodes  (IAGP)
absent lymph nodes  (IAGP)
absent marginal zone B cells  (IAGP)
absent mesenteric lymph nodes  (IAGP)
absent peripheral lymph nodes  (IAGP)
absent Peyer's patches  (IAGP)
absent popliteal lymph nodes  (IAGP)
absent spleen germinal center  (IAGP)
absent spleen marginal zone  (IAGP)
decreased body length  (IEA)
decreased circulating interferon-gamma level  (IAGP)
decreased IgA level  (IAGP)
decreased IgG level  (IAGP)
decreased IgG1 level  (IAGP)
decreased IgG2a level  (IAGP)
decreased IgG3 level  (IAGP)
decreased immunoglobulin level  (IAGP)
decreased interferon-gamma secretion  (IAGP)
decreased monocyte cell number  (IEA)
decreased NK cell number  (IAGP)
decreased spleen B cell follicle number  (IAGP)
decreased spleen white pulp amount  (IAGP)
decreased susceptibility to endotoxin shock  (IAGP)
decreased susceptibility to experimental autoimmune encephalomyelitis  (IAGP)
decreased susceptibility to induced arthritis  (IAGP)
decreased susceptibility to induced morbidity/mortality  (IAGP)
decreased susceptibility to parasitic infection  (IAGP)
decreased T cell number  (IAGP)
decreased transitional stage B cell number  (IAGP)
decreased tumor necrosis factor secretion  (IAGP)
enlarged liver  (IAGP)
enlarged spleen  (IAGP)
hepatic steatosis  (IAGP)
impaired macrophage phagocytosis  (IAGP)
increased B cell number  (IAGP)
increased B-1b cell number  (IAGP)
increased body length  (IAGP)
increased body mass index  (IAGP)
increased body weight  (IAGP)
increased bronchoconstrictive response  (IEA)
increased eosinophil cell number  (IEA)
increased heart weight  (IAGP)
increased IgM level  (IAGP)
increased leukocyte cell number  (IAGP)
increased liver weight  (IAGP)
increased lymphocyte cell number  (IAGP)
increased neutrophil cell number  (IEA)
increased pulmonary ventilation  (IEA)
increased spleen weight  (IAGP)
increased susceptibility to bacterial infection  (IAGP)
increased susceptibility to bacterial infection induced morbidity/mortality  (IAGP)
increased susceptibility to diet-induced obesity  (IAGP)
increased susceptibility to induced morbidity/mortality  (IAGP)
increased susceptibility to injury  (IAGP)
increased susceptibility to parasitic infection  (IAGP)
increased susceptibility to Poxviridae infection  (IAGP)
increased susceptibility to Riboviria infection  (IAGP)
liver inflammation  (IAGP)
long tibia  (IAGP)
lung inflammation  (IAGP)
retina photoreceptor degeneration  (IAGP)
small thymus medulla  (IAGP)
thin retina inner nuclear layer  (IAGP)
thin retina outer nuclear layer  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Tumor necrosis factor beta gene polymorphisms in Graves' disease. Badenhoop K, etal., J Clin Endocrinol Metab. 1992 Feb;74(2):287-91.
2. Association between genetic variants in the tumour necrosis factor/lymphotoxin alpha/lymphotoxin beta locus and primary Sjogren's syndrome in Scandinavian samples. Bolstad AI, etal., Ann Rheum Dis. 2012 Jun;71(6):981-8. doi: 10.1136/annrheumdis-2011-200446. Epub 2012 Jan 30.
3. TNFA-TNFB haplotypes modify susceptibility to type I diabetes mellitus independently of HLA class II in a Moroccan population. Bouqbis L, etal., Tissue Antigens. 2003 Jan;61(1):72-9.
4. Tumour necrosis factor beta alleles and hyperinsulinaemia in coronary artery disease. Braun J, etal., Eur J Clin Invest. 1998 Jul;28(7):538-42.
5. Lack of association between atopic asthma and the tumor necrosis factor alpha-308 gene polymorphism in a Czech population. Buckova D, etal., J Investig Allergol Clin Immunol. 2002;12(3):192-7.
6. Polymorphism in tumor necrosis factor genes associated with mucocutaneous leishmaniasis. Cabrera M, etal., J Exp Med. 1995 Nov 1;182(5):1259-64.
7. Analysis of a Chinese population suggests that the TNFB gene is not a susceptibility gene for Graves' disease. Cavan DA, etal., Hum Immunol. 1994 Jun;40(2):135-7.
8. Ancestral haplotype 8.1 and lung disease severity in European cystic fibrosis patients. Corvol H, etal., J Cyst Fibros. 2012 Jan;11(1):63-7. Epub 2011 Oct 10.
9. Differential expression of cytokines in the rat heart in response to sustained volume overload. Dai RP, etal., Eur J Heart Fail. 2004 Oct;6(6):693-703.
10. High IL-6 and low IL-10 in the central nervous system are associated with protracted relapsing EAE in DA rats. Diab A, etal., J Neuropathol Exp Neurol. 1997 Jun;56(6):641-50.
11. Genes of the class II and class III major histocompatibility complex are associated with typhoid fever in Vietnam. Dunstan SJ, etal., J Infect Dis. 2001 Jan 15;183(2):261-268. doi: 10.1086/317940. Epub 2000 Dec 21.
12. Distinct roles for lymphotoxin-alpha and tumor necrosis factor in the control of Leishmania donovani infection. Engwerda CR, etal., Am J Pathol. 2004 Dec;165(6):2123-33.
13. Locally up-regulated lymphotoxin alpha, not systemic tumor necrosis factor alpha, is the principle mediator of murine cerebral malaria. Engwerda CR, etal., J Exp Med. 2002 May 20;195(10):1371-7.
14. The TNF-beta gene Nco I polymorphism is not associated with hypertriglyceridemia or insulin resistance in lean and obese subjects. Fernandez-Real JM, etal., Biochem Biophys Res Commun. 1997 Jul 30;236(3):829-32.
15. Influence of metabolic and genetic factors on tumour necrosis factor-alpha and lymphotoxin-alpha production in insulin-dependent diabetes mellitus. Feugeas JP, etal., Diabetes Metab. 1997 Sep;23(4):295-301.
16. Polymorphisms in tumor necrosis factor and lymphotoxin A in tuberculosis without and with response to treatment. Garcia-Elorriaga G, etal., Inflammation. 2010 Aug;33(4):267-75.
17. -308GA and TNFB polymorphisms in acute respiratory distress syndrome. Gong MN, etal., Eur Respir J. 2005 Sep;26(3):382-9.
18. The common T60N polymorphism of the lymphotoxin-alpha gene is associated with type 2 diabetes and other phenotypes of the metabolic syndrome. Hamid YH, etal., Diabetologia. 2005 Mar;48(3):445-51. Epub 2005 Feb 24.
19. A clinical feature associated with polymorphisms of the TNF region in Japanese patients with palmoplantar pustulosis. Hashigucci K, etal., Hum Immunol. 2003 May;64(5):530-7.
20. Association of a lymphotoxin-alpha gene polymorphism and atopic asthma in Taiwanese children. Huang SC, etal., Pediatr Neonatol. 2008 Apr;49(2):30-4.
21. Histocompatibility leucocyte antigens and closely linked immunomodulatory genes in autoimmune thyroid disease. Hunt PJ, etal., Clin Endocrinol (Oxf). 2001 Oct;55(4):491-9.
22. Transmembrane tumor necrosis factor alpha is required for enteropathy and is sufficient to promote parasite expulsion in gastrointestinal helminth infection. Ierna MX, etal., Infect Immun. 2009 Sep;77(9):3879-85. doi: 10.1128/IAI.01461-08. Epub 2009 Jun 29.
23. Anti-tumor necrosis factor antibody enhances allograft survival in rats. Imagawa DK, etal., J Surg Res. 1990 Apr;48(4):345-8.
24. Cytokine production in the central nervous system of Lewis rats with experimental autoimmune encephalomyelitis: dynamics of mRNA expression for interleukin-10, interleukin-12, cytolysin, tumor necrosis factor alpha and tumor necrosis factor beta. Issazadeh S, etal., J Neuroimmunol. 1995 Sep;61(2):205-12.
25. The interaction of the polymorphisms in transporter of antigen peptides (TAP) and lymphotoxin alpha (LT-alpha) genes and atopic diseases in the Czech population. Izakovicova Holla L, etal., Clin Exp Allergy. 2001 Sep;31(9):1418-23.
26. Cytokine gene polymorphisms and susceptibility to cutaneous leishmaniasis in Iranian patients. Kamali-Sarvestani E, etal., Cytokine. 2006 Aug;35(3-4):159-65. Epub 2006 Sep 6.
27. Duration of non-Insulin-dependent diabetes mellitus and the TNF-beta NcoI genotype as predictive factors in proliferative diabetic retinopathy. Kankova K, etal., Ophthalmologica. 2001 Jul-Aug;215(4):294-8.
28. Association between the tumor necrosis factor locus and the clinical outcome of Leishmania chagasi infection. Karplus TM, etal., Infect Immun. 2002 Dec;70(12):6919-25.
29. Tumor necrosis factor-alpha allele lymphotoxin-alpha+250 is associated with the presence and severity of placental inflammation among preterm births. Kazzi SN, etal., Pediatr Res. 2004 Jul;56(1):94-8. Epub 2004 May 5.
30. Polymorphisms of tumor necrosis factor (TNF) alpha and beta genes in Korean patients with psoriasis. Kim TG, etal., Arch Dermatol Res. 2003 Apr;295(1):8-13. Epub 2003 Mar 13.
31. Association of single nucleotide polymorphisms (SNPs) in TNF-LTA locus with breast cancer risk in Indian population. Kohaar I, etal., Breast Cancer Res Treat. 2009 Mar;114(2):347-55. doi: 10.1007/s10549-008-0006-5. Epub 2008 Apr 14.
32. Lymphotoxin alpha-/- mice develop functionally impaired CD8+ T cell responses and fail to contain virus infection of the central nervous system. Kumaraguru U, etal., J Immunol. 2001 Jan 15;166(2):1066-74.
33. Association of the lymphotoxin-alpha gene Thr26Asn polymorphism with severity of coronary atherosclerosis. Laxton R, etal., Genes Immun. 2005 Sep;6(6):539-41.
34. [Association of cytokine gene polymorphisms with cachexia related to sporadic female breast cancer]. Li FN, etal., Zhonghua Yi Xue Za Zhi. 2008 May 27;88(20):1402-4.
35. Association between LTA, TNF and AGER polymorphisms and late diabetic complications. Lindholm E, etal., PLoS One. 2008 Jun 25;3(6):e2546.
36. Effects of intracarotid and intravenous infusion of human TNF and LT on established intracerebral rat gliomas. Liu SK, etal., Lymphokine Cytokine Res. 1991 Jun;10(3):189-94.
37. T helper 1 cytokine mRNA is increased in spontaneously regressing primary melanomas. Lowes MA, etal., J Invest Dermatol. 1997 Jun;108(6):914-9.
38. Polymorphisms in the IL-4, IL-4 receptor alpha chain, TNF-alpha, and lymphotoxin-alpha genes and risk of asthma in Hong Kong Chinese adults. Mak JC, etal., Int Arch Allergy Immunol. 2007;144(2):114-22. Epub 2007 May 24.
39. Variation in the lymphotoxin-alpha/tumor necrosis factor locus modifies risk of erythema nodosum in sarcoidosis. McDougal KE, etal., J Invest Dermatol. 2009 Aug;129(8):1921-6. doi: 10.1038/jid.2008.456. Epub 2009 Feb 19.
40. Polymorphism of the tumor necrosis factor genes in patients with dermatitis herpetiformis. Messer G, etal., Dermatology. 1994;189 Suppl 1:135-7.
41. MGDs mouse GO annotations MGD data from the GO Consortium
42. MGD IEA MGD IEA
43. Haplotype analysis of a 100 kb region spanning TNF-LTA identifies a polymorphism in the LTA promoter region that is associated with atopic asthma susceptibility in Japan. Migita O, etal., Clin Exp Allergy. 2005 Jun;35(6):790-6.
44. Human LT-alpha-mediated resistance to autoimmune diabetes is induced in NOD, but not NOD-scid, mice and abrogated by IL-12. Miyaguchi S, etal., Clin Immunol. 2001 Jan;98(1):119-24.
45. Association of tumour necrosis factor-alpha, lymphotoxin-alpha and HLA-DRB1 gene polymorphisms with Lofgren's syndrome in Czech patients with sarcoidosis. Mrazek F, etal., Tissue Antigens. 2005 Feb;65(2):163-71.
46. Determination of lymphotoxin-alpha levels in patients with psoriatic arthritis undergoing etanercept treatment. Murdaca G, etal., J Interferon Cytokine Res. 2012 Jun;32(6):277-9. doi: 10.1089/jir.2011.0120. Epub 2012 Apr 5.
47. An association study in essential hypertension using functional polymorphisms in lymphotoxin-alpha gene. Nakayama T, etal., Am J Hypertens. 2004 Nov;17(11 Pt 1):1045-9.
48. The SMXA: a new set of recombinant inbred strain of mice consisting of 26 substrains and their genetic profile. Nishimura M, etal., Mamm Genome 1995 Dec;6(12):850-7.
49. Lymphotoxin-alpha polymorphisms and the risk of endometrial cancer in Japanese subjects. Niwa Y, etal., Gynecol Oncol. 2007 Mar;104(3):586-90. Epub 2006 Oct 11.
50. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
51. Functional SNPs in the lymphotoxin-alpha gene that are associated with susceptibility to myocardial infarction. Ozaki K, etal., Nat Genet. 2002 Dec;32(4):650-4. Epub 2002 Nov 11.
52. TNF-alpha and TNF-beta gene polymorphisms in systemic sclerosis. Pandey JP and Takeuchi F, Hum Immunol. 1999 Nov;60(11):1128-30.
53. Polymorphisms of tumour necrosis factors A and B in breast cancer. Park KS, etal., Eur J Immunogenet. 2002 Feb;29(1):7-10.
54. Influence of allergy on clinical, immunological and histological characteristics of nasal polyposis. Peric A, etal., B-ENT. 2012;8(1):25-32.
55. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
56. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
57. Induction of TNF alpha and TNF beta gene expression in rat cardiac transplants during allograft rejection. Pizarro TT, etal., Transplantation. 1993 Aug;56(2):399-404.
58. Essential role of lymph nodes in contact hypersensitivity revealed in lymphotoxin-alpha-deficient mice. Rennert PD, etal., J Exp Med. 2001 Jun 4;193(11):1227-38.
59. Mouse MP Annotation Import Pipeline RGD automated import pipeline
60. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
61. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
62. A strong genetic association between the tumor necrosis factor locus and proliferative vitreoretinopathy: the retina 4 project. Rojas J, etal., Ophthalmology. 2010 Dec;117(12):2417-2423.e1-2. doi: 10.1016/j.ophtha.2010.03.059. Epub 2010 Jul 21.
63. Loss of lymphotoxin-alpha but not tumor necrosis factor-alpha reduces atherosclerosis in mice. Schreyer SA, etal., J Biol Chem. 2002 Apr 5;277(14):12364-8. Epub 2002 Jan 23.
64. A role for lymphotoxin in primary Sjogren's disease. Shen L, etal., J Immunol. 2010 Nov 15;185(10):6355-63. doi: 10.4049/jimmunol.1001520. Epub 2010 Oct 15.
65. Independent association of tumor necrosis factor polymorphism with type 1 diabetes susceptibility. Shin HD, etal., Ann N Y Acad Sci. 2008 Dec;1150:76-85.
66. Modulation of type 1 diabetes susceptibility by tumor necrosis factor alpha -308 G/A and lymphotoxin alpha +249 A/G haplotypes and lack of linkage disequilibrium with predisposing DQB1-DRB1 haplotypes in Bahraini patients. Stayoussef M, etal., Clin Vaccine Immunol. 2008 Feb;15(2):379-81. Epub 2007 Nov 7.
67. Decreased mortality associated with statin treatment in patients with acute myocardial infarction and lymphotoxin-alpha C804A polymorphism. Suna S, etal., Atherosclerosis. 2013 Apr;227(2):373-9. doi: 10.1016/j.atherosclerosis.2013.01.020. Epub 2013 Jan 25.
68. Prevention of type I diabetes with lymphotoxin in BB rats. Takahashi K, etal., Clin Immunol Immunopathol. 1993 Dec;69(3):318-23.
69. Tumor necrosis factor gene polymorphism in chronic sinusitis. Takeuchi K, etal., Laryngoscope. 2000 Oct;110(10 Pt 1):1711-4.
70. Prognostic significance of tumor necrosis factors and their receptors in nonsmall cell lung carcinoma. Tran TA, etal., Cancer. 1998 Jul 15;83(2):276-82.
71. Candidate genes of cerebrovascular disease and sudden sensorineural hearing loss. Um JY, etal., Clin Appl Thromb Hemost. 2010 Oct;16(5):559-62. doi: 10.1177/1076029609348313. Epub 2009 Oct 14.
72. TNF-alpha and TNF-beta gene polymorphisms in cerebral infarction. Um JY, etal., J Mol Neurosci. 2003;21(2):167-71.
73. A tumor necrosis factor-beta polymorphism associated with hypertriglyceridemia in non-insulin-dependent diabetes mellitus. Vendrell J, etal., Metabolism. 1995 Jun;44(6):691-4.
74. Linkage map of mouse chromosome 17: localization of 27 new DNA markers. Vincek V, etal., Genomics 1989 Nov;5(4):773-86.
75. Lack of association of polymorphisms of the lymphotoxin alpha gene with myocardial infarction in Japanese. Yamada A, etal., J Mol Med. 2004 Jul;82(7):477-83. Epub 2004 Jun 3.
76. Combination of multiple genetic risk factors is synergistically associated with carotid atherosclerosis in Japanese subjects with type 2 diabetes. Yamasaki Y, etal., Diabetes Care. 2006 Nov;29(11):2445-51.
77. Relationship between polymorphisms 804C/A and 252A/G of lymphotoxin-alpha gene and -308G/A of tumor necrosis factor alpha gene and diabetic retinopathy in Japanese patients with type 2 diabetes mellitus. Yoshioka K, etal., Metabolism. 2006 Oct;55(10):1406-10.
78. Large-scale studies of the association between variation at the TNF/LTA locus and susceptibility to type 2 diabetes. Zeggini E, etal., Diabetologia. 2005 Oct;48(10):2013-7. Epub 2005 Aug 18.
Additional References at PubMed
PMID:1533632   PMID:1649220   PMID:1673964   PMID:1700275   PMID:1714477   PMID:1732752   PMID:1794054   PMID:2228046   PMID:2450487   PMID:2884262   PMID:2885372   PMID:2937063  
PMID:3027565   PMID:3147435   PMID:3490653   PMID:3588316   PMID:3684584   PMID:4540898   PMID:6334807   PMID:7495745   PMID:7583355   PMID:7608544   PMID:7636227   PMID:7768593  
PMID:7813906   PMID:7846035   PMID:7916002   PMID:7995944   PMID:8080166   PMID:8097912   PMID:8119735   PMID:8132347   PMID:8138038   PMID:8157957   PMID:8171316   PMID:8171322  
PMID:8228806   PMID:8242763   PMID:8387892   PMID:8387893   PMID:8406442   PMID:8491516   PMID:8499946   PMID:8535974   PMID:8638112   PMID:8642347   PMID:8650181   PMID:8671586  
PMID:8672143   PMID:8684487   PMID:8691140   PMID:8867667   PMID:8912010   PMID:9006341   PMID:9021146   PMID:9036957   PMID:9130661   PMID:9133428   PMID:9159143   PMID:9166104  
PMID:9166595   PMID:9176705   PMID:9182683   PMID:9182689   PMID:9230199   PMID:9256477   PMID:9307073   PMID:9317127   PMID:9317128   PMID:9344502   PMID:9367897   PMID:9368616  
PMID:9379020   PMID:9396768   PMID:9463397   PMID:9521083   PMID:9529317   PMID:9537442   PMID:9565643   PMID:9625757   PMID:9697836   PMID:9697837   PMID:9705956   PMID:9716651  
PMID:9763613   PMID:9782127   PMID:9790725   PMID:9811942   PMID:9834074   PMID:9862349   PMID:9892622   PMID:10064079   PMID:10067894   PMID:10329594   PMID:10339588   PMID:10349636  
PMID:10381864   PMID:10405365   PMID:10415034   PMID:10415052   PMID:10415063   PMID:10453025   PMID:10469308   PMID:10476056   PMID:10477548   PMID:10493167   PMID:10515827   PMID:10540319  
PMID:10562322   PMID:10580607   PMID:10586051   PMID:10608881   PMID:10618409   PMID:10679088   PMID:10684295   PMID:10687308   PMID:10692238   PMID:10698075   PMID:10759375   PMID:10799877  
PMID:10805971   PMID:10843380   PMID:10864873   PMID:10871872   PMID:10878339   PMID:10914503   PMID:10917533   PMID:10940914   PMID:11042159   PMID:11067918   PMID:11076861   PMID:11123309  
PMID:11137582   PMID:11159184   PMID:11160211   PMID:11208864   PMID:11217851   PMID:11239407   PMID:11293812   PMID:11298355   PMID:11433391   PMID:11477542   PMID:11488978   PMID:11489971  
PMID:11518731   PMID:11536150   PMID:11564771   PMID:11672543   PMID:11733579   PMID:11739537   PMID:11751946   PMID:11792852   PMID:11801629   PMID:11805150   PMID:11854219   PMID:11907097  
PMID:11907234   PMID:11920578   PMID:11932402   PMID:11994450   PMID:11994465   PMID:12006975   PMID:12069182   PMID:12093872   PMID:12115617   PMID:12115620   PMID:12147624   PMID:12150889  
PMID:12163535   PMID:12354388   PMID:12391242   PMID:12405187   PMID:12444124   PMID:12446781   PMID:12447768   PMID:12466141   PMID:12466851   PMID:12477932   PMID:12560241   PMID:12603600  
PMID:12614279   PMID:12648490   PMID:12651603   PMID:12682226   PMID:12713579   PMID:12732657   PMID:12734369   PMID:12759424   PMID:12787557   PMID:12794148   PMID:12819136   PMID:12829028  
PMID:12860530   PMID:12882833   PMID:12885938   PMID:14517552   PMID:14581001   PMID:14617751   PMID:14638845   PMID:14656967   PMID:14691481   PMID:14691482   PMID:14732063   PMID:14764671  
PMID:15004164   PMID:15009470   PMID:15071180   PMID:15170228   PMID:15210762   PMID:15245428   PMID:15247480   PMID:15265903   PMID:15270844   PMID:15311275   PMID:15382206   PMID:15470018  
PMID:15521015   PMID:15536567   PMID:15585839   PMID:15592751   PMID:15632007   PMID:15657949   PMID:15661974   PMID:15664785   PMID:15709026   PMID:15793291   PMID:15814693   PMID:15840716  
PMID:15843574   PMID:15845449   PMID:15905567   PMID:15937486   PMID:15937549   PMID:16002734   PMID:16040991   PMID:16141072   PMID:16141073   PMID:16200624   PMID:16210592   PMID:16406654  
PMID:16517718   PMID:16517733   PMID:16582913   PMID:16705172   PMID:16738056   PMID:16751279   PMID:16751400   PMID:16785524   PMID:16887965   PMID:17018858   PMID:17082587   PMID:17082596  
PMID:17119110   PMID:17163957   PMID:17236235   PMID:17266742   PMID:17339474   PMID:17360402   PMID:17392163   PMID:17431181   PMID:17452522   PMID:17456769   PMID:17502664   PMID:17521585  
PMID:17526859   PMID:17692539   PMID:17768379   PMID:17911622   PMID:17947641   PMID:17948268   PMID:17982070   PMID:17989315   PMID:18097025   PMID:18202551   PMID:18212064   PMID:18354186  
PMID:18384745   PMID:18390720   PMID:18403646   PMID:18442881   PMID:18483211   PMID:18490487   PMID:18519649   PMID:18612394   PMID:18769490   PMID:18952083   PMID:19003818   PMID:19089813  
PMID:19100703   PMID:19164352   PMID:19246648   PMID:19249230   PMID:19303389   PMID:19380813   PMID:19380818   PMID:19414773   PMID:19427241   PMID:19468301   PMID:19503106   PMID:19561618  
PMID:19658092   PMID:19681056   PMID:19757439   PMID:19783990   PMID:19789388   PMID:19800575   PMID:19805094   PMID:19822644   PMID:19920180   PMID:20008132   PMID:20207995   PMID:20304952  
PMID:20436484   PMID:20439544   PMID:20494341   PMID:20566898   PMID:20643338   PMID:20720206   PMID:20739675   PMID:20805422   PMID:20817877   PMID:20861360   PMID:21135813   PMID:21153307  
PMID:21267068   PMID:21419662   PMID:21435450   PMID:21436282   PMID:21441458   PMID:21586747   PMID:21666055   PMID:21666689   PMID:21801869   PMID:21871814   PMID:22078797   PMID:22080953  
PMID:22318945   PMID:22357629   PMID:22386268   PMID:22437076   PMID:22634865   PMID:22770220   PMID:22880094   PMID:22901752   PMID:22906740   PMID:22922363   PMID:23248258   PMID:23277487  
PMID:23300712   PMID:23360826   PMID:23385062   PMID:23704873   PMID:23850656   PMID:23935190   PMID:24129162   PMID:24129164   PMID:24194600   PMID:24292710   PMID:24311691   PMID:24439895  
PMID:24440154   PMID:24508087   PMID:24634490   PMID:24684957   PMID:24759321   PMID:24883436   PMID:24913234   PMID:25252690   PMID:25501629   PMID:25599993   PMID:25600442   PMID:25770220  
PMID:25776744   PMID:25968334   PMID:26147686   PMID:26646413   PMID:27022143   PMID:27323847   PMID:27457277   PMID:27626380   PMID:27939671   PMID:28341747   PMID:28355561   PMID:28455312  
PMID:28497779   PMID:28917655   PMID:29186687   PMID:29593265   PMID:29596840   PMID:29936495   PMID:30277476   PMID:30333312   PMID:31995749   PMID:31999807   PMID:31999809   PMID:32012252  
PMID:32325033   PMID:32591396   PMID:33207209   PMID:33724364   PMID:34289373   PMID:34413303   PMID:35443187   PMID:35525247   PMID:35741098   PMID:35918150   PMID:36640762   PMID:38355793  


Genomics

Comparative Map Data
Lta
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,422,141 - 35,424,568 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1735,422,141 - 35,424,327 (-)EnsemblGRCm39 Ensembl
GRCm381735,203,165 - 35,205,578 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,203,165 - 35,205,351 (-)EnsemblGRCm38mm10GRCm38
MGSCv371735,340,110 - 35,342,296 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361734,811,215 - 34,813,235 (-)NCBIMGSCv36mm8
Celera1738,299,868 - 38,302,049 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.59NCBI
LTA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38631,560,610 - 31,574,324 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl631,572,054 - 31,574,324 (+)EnsemblGRCh38hg38GRCh38
GRCh37631,539,876 - 31,542,101 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,648,072 - 31,650,077 (+)NCBINCBI36Build 36hg18NCBI36
Build 34631,648,071 - 31,650,077NCBI
Celera633,138,091 - 33,140,313 (+)NCBICelera
Cytogenetic Map6p21.33NCBI
HuRef631,326,608 - 31,328,835 (+)NCBIHuRef
CHM1_1631,542,008 - 31,544,233 (+)NCBICHM1_1
T2T-CHM13v2.0631,424,599 - 31,427,376 (+)NCBIT2T-CHM13v2.0
Lta
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,622,291 - 3,625,852 (+)NCBIGRCr8
mRatBN7.2203,618,853 - 3,621,324 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,618,853 - 3,620,859 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx204,318,695 - 4,320,726 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,680,759 - 3,682,786 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0204,218,329 - 4,220,348 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0204,851,889 - 4,854,677 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl204,852,496 - 4,854,677 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0206,932,260 - 6,935,077 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,657,842 - 3,659,848 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1203,658,068 - 3,660,075 (+)NCBI
Celera204,404,630 - 4,406,751 (-)NCBICelera
Cytogenetic Map20p12NCBI
Lta
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955437114,640 - 115,529 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955437114,216 - 116,003 (+)NCBIChiLan1.0ChiLan1.0
LTA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2546,049,233 - 46,051,266 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1642,011,243 - 42,012,833 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0631,233,411 - 31,235,409 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1632,123,353 - 32,125,375 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl632,123,353 - 32,125,375 (+)Ensemblpanpan1.1panPan2
LTA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,070,608 - 1,073,053 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl121,071,192 - 1,073,067 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,207,912 - 1,208,854 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0121,215,963 - 1,218,298 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl121,216,437 - 1,217,676 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1121,075,453 - 1,076,395 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0121,143,379 - 1,144,321 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0121,210,162 - 1,211,104 (+)NCBIUU_Cfam_GSD_1.0
Lta
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494635,620,316 - 35,621,609 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367271,940,081 - 1,941,022 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367271,940,081 - 1,941,022 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LTA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl723,696,040 - 23,698,299 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1723,696,387 - 23,698,280 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2727,553,733 - 27,555,627 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap7p11-q11NCBI
LTA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366604431,473,740 - 31,476,648 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lta
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475424,627,318 - 24,628,182 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475424,626,930 - 24,628,412 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:633
Count of miRNA genes:370
Interacting mature miRNAs:429
Transcripts:ENSMUST00000025266
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10045977Tir9_mtrypanosome infection response 9 (mouse)Not determined172787811943885114Mouse
26884379Skwq5_mskull length QTL 5, 5 week (mouse)173311897454107028Mouse
1300885Mbis4_mMycobacterium bovis-induced systemic lupus erythematosus 4 (mouse)Not determined173517581770165926Mouse
1300890Bhr3_mbronchial hyperresponsiveness 3 (mouse)Not determined17397489048866091Mouse
11075105Modc1_mmodifier of Odc1 (mouse)172771579245622654Mouse
1300995Fembrs4_mfemur breaking strength 4 (mouse)Not determined171506165249061760Mouse
15039348Nmrs37_mNAFLD-associated magnetic resonance shift 37 (mouse)172781520961815209Mouse
4141357Mrdq1_mmodifier of retinal degeneration QTL 1 (mouse)Not determined3098790348039703Mouse
1302152Skull25_mskull morphology 25 (mouse)Not determined171681972150819843Mouse
1302028Asbb3_mautoimmune susceptibility in C57BL/6J and BALB/c 3 (mouse)Not determined171087811944878219Mouse
15039354Nmrs36_mNAFLD-associated magnetic resonance shift 36 (mouse)171914502553145025Mouse
1300787Cd8mts5_mCD8 memory T cell subset 5 (mouse)Not determined17858491442585149Mouse
4141215Mnic1_mmacronutrient intake, carbohydrate 1 (mouse)Not determined485475245670266Mouse
1300914Pcir4_mperiosteal circumference 4 (mouse)Not determined171506165249061760Mouse
13452396Leusq3_mleucocytosis susceptibility QTL 3 (mouse)171746220851462345Mouse
13524847Asrq8a_macoustic startle response 8a (mouse)171264696146646961Mouse
13452399Leusq6_mleucocytosis susceptibility QTL 6 (mouse)171746220851462345Mouse
1300535Char3_mP. chabaudi malaria resistance QTL 3 (mouse)Not determined171746220851462345Mouse
4140955Plgr1_mplague resistance locus 1 (mouse)Not determined3103350065033630Mouse
1302070Tbbmd7_mtotal body bone mineral density 7 (mouse)Not determined171506165249061760Mouse
10412214Sxbq3_mSGC/Knj cross B6 QTL 3 (mouse)Not determined171746220851462345Mouse
10412083Sm2_msusceptibility to Schistosoma mansoni infection 2 (mouse)Not determined171702994351030078Mouse
10412204Bbaa29_mB.burgdorferi-associated arthritis 29 (mouse)Not determined172605118560051352Mouse
4141067Hbnr2_mHeligmosomoides bakeri nematode resistance 2 (mouse)Not determined1188597145886119Mouse
10043949Pbft7_mpercent body fat 7 (mouse)Not determined17689393640893936Mouse
12904946Tammq8_mtibialis anterior muscle mass QTL 8 (mouse)171245178746451787Mouse
10412198Sst5_msusceptibility to tuberculosis 5 (mouse)Not determined172507658355712970Mouse
4142342Lfnq4_mlung function QTL 4 (mouse)Not determined1120648439364059Mouse
10412196Bbaa28_mB.burgdorferi-associated arthritis 28 (mouse)Not determined172558491443976235Mouse
1301935Skull24_mskull morphology 24 (mouse)Not determined17858491442585149Mouse
1302189Dps3_mdelta power in slow-wave sleep 3 (mouse)Not determined173381972136250180Mouse
1301331Lbw1_mlupus NZB x NZW 1 (mouse)Not determined171841835752420983Mouse
1301840Ssial4_msusceptibility to sialadenitiss 4 (mouse)Not determined171817541252178214Mouse
1300692Blmpf1_mbleomycin-induced pulmonary fibrosis 1 (mouse)Not determined173206165237644775Mouse
1301338Lmr1_mleishmaniasis resistance 1 (mouse)Not determined171008134086996400Mouse
1357789Kdnw3_mkidney weight 3 (mouse)Not determined17485475247885665Mouse
1300703Uvbi2_mUVB induced immunosuppression 2 (mouse)Not determined172862240662622654Mouse
1301056Pas2_mpulmonary adenoma susceptibility 2 (mouse)Not determined171842214152424327Mouse
1301454Eae5_msusceptibility to experimental allergic encephalomyelitis 5 (mouse)Not determined172461275058612864Mouse
14747010Mancz14_mmandible centroid size 14 (mouse)171199818445998184Mouse
1302005Loco2_mlocomotor activity 2 (mouse)Not determined172688497260885114Mouse
4141272Tfv1_mtotal food volume 1 (mouse)Not determined485475265637357Mouse
1300602Eye2_meye weight 2 (mouse)Not determined172650533741105037Mouse
25394538Skmw84_mskeletal muscle weight 84, TA (mouse)173266042635520036Mouse
10412276Leci2_mleukocyte endothelial cell interactions 2 (mouse)Not determined17334817537348299Mouse
1302140Wta4_mweight adult 4 (mouse)Not determined171681972150819843Mouse
1558758Kcal2_mkilocalorie 2 (mouse)Not determined172640101252911704Mouse
1300706Alan1_malloantigen response 1 (mouse)Not determined17485475246469702Mouse
1558886Lgth9_mbody length 9 (mouse)Not determined171506165249061760Mouse
4142150Stheal11_msoft tissue heal 11 (mouse)Not determined171228621183361768Mouse
11081168Tir7_mtrypanosome infection response 7 (mouse)171412337248123496Mouse
1300589Myaa2_mmodifier of Yaa 2 (mouse)Not determined173013255564132666Mouse

Markers in Region
Lta  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv371735,340,685 - 35,341,340UniSTSGRCm37
MGSCv371735,341,804 - 35,341,943UniSTSGRCm37
MGSCv371735,340,221 - 35,340,605UniSTSGRCm37
MGSCv371735,340,686 - 35,340,903UniSTSGRCm37
MGSCv371735,340,823 - 35,341,369UniSTSGRCm37
Celera1738,299,979 - 38,300,363UniSTS
Celera1738,300,443 - 38,301,098UniSTS
Celera1738,300,444 - 38,300,661UniSTS
Celera1738,300,581 - 38,301,127UniSTS
Celera1738,301,562 - 38,301,696UniSTS
Cytogenetic Map17B1UniSTS
cM Map1719.06UniSTS
cM Map1719.06UniSTS
cM Map1719.06UniSTS
D17Nds3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381735,204,859 - 35,204,998UniSTSGRCm38
MGSCv371735,341,804 - 35,341,943UniSTSGRCm37
Celera1738,301,562 - 38,301,696UniSTS
Cytogenetic Map17B1UniSTS
cM Map1719.06UniSTS
Lta  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381735,203,878 - 35,204,424UniSTSGRCm38
MGSCv371735,340,823 - 35,341,369UniSTSGRCm37
Celera1738,300,581 - 38,301,127UniSTS
Cytogenetic Map17B1UniSTS
cM Map1719.06UniSTS
Lta  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381735,204,859 - 35,204,998UniSTSGRCm38
MGSCv371735,341,804 - 35,341,943UniSTSGRCm37
Celera1738,301,562 - 38,301,696UniSTS
Cytogenetic Map17B1UniSTS
cM Map1719.06UniSTS
Lta  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381735,203,276 - 35,203,660UniSTSGRCm38
MGSCv371735,340,221 - 35,340,605UniSTSGRCm37
Celera1738,299,979 - 38,300,363UniSTS
Cytogenetic Map17B1UniSTS
cM Map1719.06UniSTS
Lta  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381735,203,740 - 35,204,395UniSTSGRCm38
MGSCv371735,340,685 - 35,341,340UniSTSGRCm37
Celera1738,300,443 - 38,301,098UniSTS
Cytogenetic Map17B1UniSTS
Lta  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381735,203,741 - 35,203,958UniSTSGRCm38
MGSCv371735,340,686 - 35,340,903UniSTSGRCm37
Celera1738,300,444 - 38,300,661UniSTS
Cytogenetic Map17B1UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_010735 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006523731 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF109719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK080308 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK153694 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK156659 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC099464 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR974444 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CU407309 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CU466548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  LN874394 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M16819 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M17015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M60586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U06950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X06216 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X06217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X06218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X14800 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y00137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y00467 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000025266   ⟹   ENSMUSP00000025266
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1735,422,141 - 35,424,327 (-)Ensembl
GRCm38.p6 Ensembl1735,203,165 - 35,205,351 (-)Ensembl
RefSeq Acc Id: NM_010735   ⟹   NP_034865
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391735,422,141 - 35,424,327 (-)NCBI
GRCm381735,203,165 - 35,205,351 (-)NCBI
MGSCv371735,340,110 - 35,342,296 (-)RGD
Celera1738,299,868 - 38,302,049 (-)RGD
cM Map17 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006523731   ⟹   XP_006523794
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391735,422,378 - 35,424,568 (-)NCBI
GRCm381735,203,402 - 35,205,578 (-)NCBI
Sequence:
RefSeq Acc Id: NP_034865   ⟸   NM_010735
- Peptide Label: precursor
- UniProtKB: P09225 (UniProtKB/Swiss-Prot),   Q542S2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006523794   ⟸   XM_006523731
- Peptide Label: isoform X1
- UniProtKB: P09225 (UniProtKB/Swiss-Prot),   Q542S2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000025266   ⟸   ENSMUST00000025266
Protein Domains
THD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P09225-F1-model_v2 AlphaFold P09225 1-202 view protein structure

Promoters
RGD ID:13675846
Promoter ID:EPDNEW_M22072
Type:multiple initiation site
Name:Lta_1
Description:Mus musculus lymphotoxin A , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381735,204,676 - 35,204,736EPDNEW
RGD ID:13675848
Promoter ID:EPDNEW_M22073
Type:initiation region
Name:TNFB_1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381735,205,175 - 35,205,235EPDNEW
RGD ID:6828313
Promoter ID:MM_KWN:23289
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Lung,   Spleen
Transcripts:NM_010735_LTA,   UC008CGU.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361735,341,921 - 35,342,421 (-)MPROMDB
RGD ID:6850158
Promoter ID:EP24027
Type:single initiation site
Name:MM_TNFB
Description:Tumor necrosis factor-beta, LTA or TNFB gene.
SO ACC ID:SO:0000170
Source:EPD (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Notes:homology_group=Homology group 127; Mammalian tumor necrosis factor beta
Experiment Methods:Nuclease protection with homologous sequence ladder; experiments; performed with closely related gene
Regulation:T (repressed by or weakly expressed in) lymphocytes; (induced by or strongly expressed in) antigen, (induced by or strongly expressed in) mitogen
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv371735,342,120 - 35,342,180EPD
MGSCv361735,342,120 - 35,342,180EPD

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:104797 AgrOrtholog
Ensembl Genes ENSMUSG00000024402 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000025266 ENTREZGENE
  ENSMUST00000025266.6 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.120.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro TNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:16992 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:104797 ENTREZGENE
NCBI Gene 16992 ENTREZGENE
PANTHER LYMPHOTOXIN-ALPHA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR FAMILY MEMBER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB LTA RGD
PhenoGen Lta PhenoGen
PRINTS TNECROSISFCT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFBETA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TNF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART TNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49842 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt P09225 ENTREZGENE
  Q3U0Q5_MOUSE UniProtKB/TrEMBL
  Q542S2 ENTREZGENE, UniProtKB/TrEMBL
  TNFB_MOUSE UniProtKB/Swiss-Prot