Basic Information

Symbol
LTA
RNA class
mRNA
Alias
Lymphotoxin Alpha TNFSF1 TNFB LT Tumor Necrosis Factor Ligand Superfamily Member 1 Lymphotoxin-Alpha LT-Alpha TNF-Beta Lymphotoxin Alpha (TNF Superfamily, Member 1) Tumor Necrosis Factor Ligand 1E Tumor Necrosis Factor Beta TNF Superfamily, Member 1 TNF Superfamily Member 1 TNLG1E
Location (GRCh38)
6:31572054-31574324
UCSC Genome Browser Search in Marker Scope
Forensic tag(s)
Wound age identification Other applications
External database
HGNC NCBI Ensembl OMIM UniProt GTEx

MANE select

Transcript ID
NM_000595.4
Sequence length
1416.0 nt
GC content
0.5657

Secondary Structure

Generated by RNAfold
Minimum free energy (MFE) structure:
Secondary structure that contributes a minimum of free energy.
Ensemble properties:
Thermodynamic properties of the Boltzmann ensemble.
Minimum free energy
-512.70 kcal/mol
Thermodynamic ensemble
Free energy: -536.96 kcal/mol
Frequency: 0.0000
Diversity: 401.49
MFE Structure Visualization
Structure Prediction
MFE Structure Prediction
..((((..((((((((((((.......((((.........)))).((.((.....)).))...(((((...(((((((((.(.......).))).))))))...)))))..))).)))))))))..)))).....(((((....)))))((((((((((..........(((...........)))........)))))((((((.((.....)).)))))).(((((...(((((((....(((((((((((..(((((((((((((...))))(((((((((..........(((((....)).)))...))))))))).(((((....))))).........((((((..((((((.((...((((..(((((..(((...(((((......)))))((((((.(....((((...))))....)))))))..)))..))))).))))......(((((((.(((((.((....(((((((...((((.((.((((..(((((((((....(((((.((....)).))))))))))))))..(((((.......((((.((....)).))))((((((((((((.(((.((((((((...(((((((..((((((((.(((((((((((...(.(((((((.((((.((((((.((((.....))))))).)))((((.....)))).......(((.((...((((((..........)))))).)).)))......))))))))))).))))))))))))..))))).(((........)))..((((....))))((((..((......))..)))).......((.(((((..((.(((((((..(((((........)))))...((..((((((((((......(((((((((.(((.((((..((((...))))..)))))))........(((((((((((((...((((((........))))))...((((...)))).......((((((.....)).)))))))))).)))))))........)))))))))(((((((((((.....))))))))..)))........)))))).))))..))...)))))))))..))))))))))..))))))))))))))))))....................(((((.....))))).)))))).)))))).)))))............(((((..((................))..).))))..))))))))))..)))).)))..))..))))).))))))))).))))))..))))))......)))))))))..))))).....(((.(((.....)))..))))))))))))))))...)))))((((.........))))..))))).....................
Thermodynamic Ensemble Prediction
{,({{{..{|||((((({(({......|||,||,,,..,|||||,{{.,(.{{,,||{||...(((((...(((((((((.{.......,.))),,)))))...)))))..|,,|)))}}}}}),.}))}.,{{.(((((....))))),|||{{{((({,,.......||,,,,,.......}}}........,,,}|((((((.((.....})})))))}|(((((,{.(((((((,{,,{((((((((((..(((((((((,,((((...{{(({(({({....,,,,,..,,}}.}}))}}.,.}}}},}}.|||...{{{{,.,,.,}}}|,...,,}},((((((..(((((({((,..{{{,..(((((..(((.,.{((((......))))}((((((.{....((((...))))....}))))))}.)))..))))).)))),.....(((((((.(((((.,,.{,.(((((((...{{{,.,,.,{{,..(((((((((....(((((.((....)).)))))))))))))),,((,{(,,{,,..{({{,{{.,,.||.|}}}(((((((((({{.,({.{{{(((({.,.({(((((,,((,(((((.(((((((((((...,.(((((((.((((.((((((.((((.....))))))).)))((((.....)))).......(((.((...((((((..........)))))).)).))}......))))))))))).))))))))))))..))))).,((.{{{{{{{||..{((((....))))}.....,.,{{{,,{|{,|||,....{{{(((((((,,,(({((((,,,,{((({{...,,}},||||{{{.((.,({(((((((({,,...(((((((((.,{(.((((,.((({...))))..))))))}.....,..(((((((((((((...((((((........))))))...((((...)))).......((((({{...,)),})))))))))))))))))........)))))))))(({((((((((.....))))))))..})),|,.....}})}))),))}..))}.,)})))))))..}))))))))),,,)))))))))}))))),,......}}}}}.....}}}}}|||}}}}}}.))))})))))).))))})})))),......}}}}..,,,,,.}))))}...,}}}...},})),.).),,).,))))),)))),.)))).)))..))..))))).))))))},,.))))))..))))))......))))))))),.)))))},...((({(((...|,),}..))},,,)))))))}}}.,.)))))|{|{.},......)}}).,))))).................,,..

Transcripts

ID Sequence Length GC content
NM_000595.4 NCBI
GCUCCGCACAGCAGGUGAGGCUCUCCUGCCCCAUCUCCUUGGGCUGCCC… 1416 nt 0.5657
NM_001159740.2 NCBI
AGUCGCCUGAACCCCCAGCCUGUGGUUCUCUCCUAGGCCUCAGCCUUUC… 1474 nt 0.5590
Summary

The encoded protein, a member of the tumor necrosis factor family, is a cytokine produced by lymphocytes. The protein is highly inducible, secreted, and forms heterotrimers with lymphotoxin-beta which anchor lymphotoxin-alpha to the cell surface. This protein also mediates a large variety of inflammatory, immunostimulatory, and antiviral responses, is involved in the formation of secondary lymphoid organs during development and plays a role in apoptosis. Genetic variations in this gene are associated with susceptibility to leprosy type 4, myocardial infarction, non-Hodgkin's lymphoma, and psoriatic arthritis. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, Jul 2012]

Forensic Context

A scoping review of human twin studies found that the LTA gene, a cytokine involved in inflammatory response, was mentioned in the introduction and discussion as having decreased DNA methylation in cord or child blood associated with birth weight in singleton epigenome-wide association studies [Dany Laure Wadji et al. DOI:10.1371/journal.pone.0315549]. A study in rats demonstrated that blast wave exposure induces a complex vascular wound healing and inflammatory response, with mRNA expression changes in lymphocyte activation and migration pathways being blast intensity- and time-dependent [Balaban et al. DOI:10.1016/j.jneumeth.2016.02.001].