LOCUS       NM_013693               1653 bp    mRNA    linear   ROD 04-MAR-2025
DEFINITION  Mus musculus tumor necrosis factor (Tnf), transcript variant 1,
            mRNA.
ACCESSION   NM_013693
VERSION     NM_013693.3
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1653)
  AUTHORS   Wei,W., Gao,X., Qian,J., Li,L., Zhao,C., Xu,L., Zhu,Y., Liu,Z.,
            Liu,N., Wang,X., Jin,Z., Liu,B., Xu,L., Dong,J., Zhang,S., Wang,J.,
            Zhang,Y., Yu,Y., Yan,Z., Yang,Y., Lu,J., Fang,Y., Yuan,N. and
            Wang,J.
  TITLE     Beclin 1 prevents ISG15-mediated cytokine storms to secure fetal
            hematopoiesis and survival
  JOURNAL   J Clin Invest 135 (3), e177375 (2025)
   PUBMED   39589832
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1653)
  AUTHORS   Pryce,B.R., Oles,A., Talbert,E.E., Romeo,M.J., Vaena,S., Sharma,S.,
            Spadafora,V., Tolliver,L., Mahvi,D.A., Morgan,K.A., Lancaster,W.P.,
            Beal,E., Koren,N., Watts,B., Overstreet,M., Berto,S.,
            Subramanian,S., Calisir,K., Crawford,A., Neelon,B., Ostrowski,M.C.,
            Zimmers,T.A., Tidball,J.G., Wang,D.J. and Guttridge,D.C.
  TITLE     Muscle inflammation is regulated by NF-kappaB from multiple cells
            to control distinct states of wasting in cancer cachexia
  JOURNAL   Cell Rep 43 (11), 114925 (2024)
   PUBMED   39475511
REFERENCE   3  (bases 1 to 1653)
  AUTHORS   Horiuchi,T., Mitoma,H., Harashima,S., Tsukamoto,H. and Shimoda,T.
  TITLE     Transmembrane TNF-alpha: structure, function and interaction with
            anti-TNF agents
  JOURNAL   Rheumatology (Oxford) 49 (7), 1215-1228 (2010)
   PUBMED   20194223
  REMARK    GeneRIF: The authors summarize the biological activities exerted by
            different products generated from cleavage of the human TNF.
            Review article
REFERENCE   4  (bases 1 to 1653)
  AUTHORS   Baeyens,K.J., De Bondt,H.L., Raeymaekers,A., Fiers,W. and De
            Ranter,C.J.
  TITLE     The structure of mouse tumour-necrosis factor at 1.4 A resolution:
            towards modulation of its selectivity and trimerization
  JOURNAL   Acta Crystallogr D Biol Crystallogr 55 (Pt 4), 772-778 (1999)
   PUBMED   10089307
REFERENCE   5  (bases 1 to 1653)
  AUTHORS   Baeyens,K.J., De Bondt,H.L., Raeymaekers,A., De Ranter,C.J. and
            Fiers,W.
  TITLE     Crystallization and preliminary X-ray studies of mouse tumor
            necrosis factor
  JOURNAL   Acta Crystallogr D Biol Crystallogr 53 (Pt 3), 329-330 (1997)
   PUBMED   15299938
REFERENCE   6  (bases 1 to 1653)
  AUTHORS   Pasparakis,M., Alexopoulou,L., Episkopou,V. and Kollias,G.
  TITLE     Immune and inflammatory responses in TNF alpha-deficient mice: a
            critical requirement for TNF alpha in the formation of primary B
            cell follicles, follicular dendritic cell networks and germinal
            centers, and in the maturation of the humoral immune response
  JOURNAL   J Exp Med 184 (4), 1397-1411 (1996)
   PUBMED   8879212
REFERENCE   7  (bases 1 to 1653)
  AUTHORS   Vandevoorde,V., Haegeman,G. and Fiers,W.
  TITLE     TNF-mediated IL6 gene expression and cytotoxicity are co-inducible
            in TNF-resistant L929 cells
  JOURNAL   FEBS Lett 302 (3), 235-238 (1992)
   PUBMED   1318227
REFERENCE   8  (bases 1 to 1653)
  AUTHORS   Lafuse,W.P., Lanning,D., Spies,T. and David,C.S.
  TITLE     PFGE mapping and RFLP analysis of the S/D region of the mouse H-2
            complex
  JOURNAL   Immunogenetics 36 (2), 110-116 (1992)
   PUBMED   1351875
REFERENCE   9  (bases 1 to 1653)
  AUTHORS   Pennica,D., Hayflick,J.S., Bringman,T.S., Palladino,M.A. and
            Goeddel,D.V.
  TITLE     Cloning and expression in Escherichia coli of the cDNA for murine
            tumor necrosis factor
  JOURNAL   Proc Natl Acad Sci U S A 82 (18), 6060-6064 (1985)
   PUBMED   3898078
REFERENCE   10 (bases 1 to 1653)
  AUTHORS   Fransen,L., Muller,R., Marmenout,A., Tavernier,J., Van der
            Heyden,J., Kawashima,E., Chollet,A., Tizard,R., Van Heuverswyn,H.,
            Van Vliet,A. et al.
  TITLE     Molecular cloning of mouse tumour necrosis factor cDNA and its
            eukaryotic expression
  JOURNAL   Nucleic Acids Res 13 (12), 4417-4429 (1985)
   PUBMED   2989794
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AK153800.1, AK153319.1 and
            CR974444.18.
            
            On Jun 30, 2013 this sequence version replaced NM_013693.2.
            
            Summary: This gene encodes a multifunctional proinflammatory
            cytokine that belongs to the tumor necrosis factor (TNF)
            superfamily. Members of this family are classified based on primary
            sequence, function, and structure. This protein is synthesized as a
            type-II transmembrane protein and is reported to be cleaved into
            products that exert distinct biological functions. It plays an
            important role in the innate immune response as well as regulating
            homeostasis but is also implicated in diseases of chronic
            inflammation. In mouse deficiency of this gene is associated with
            defects in response to bacterial infection, with defects in forming
            organized follicular dendritic cell networks and germinal centers,
            and with a lack of primary B cell follicles. Alternative splicing
            results in multiple transcript variants. [provided by RefSeq, Jun
            2013].
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK153800.1, AK153319.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164138, SAMN02415133
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1                 AK153800.1         2-2
            2-1640              AK153319.1         2-1640
            1641-1653           CR974444.18        135362-135374       c
FEATURES             Location/Qualifiers
     source          1..1653
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 18.59 cM"
     gene            1..1653
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /note="tumor necrosis factor"
                     /db_xref="GeneID:21926"
                     /db_xref="MGI:MGI:104798"
     exon            1..353
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /inference="alignment:Splign:2.1.0"
     CDS             168..875
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /note="isoform 1 is encoded by transcript variant 1;
                     cachectin; tumor necrosis factor ligand superfamily member
                     2; tumor necrosis factor-alpha; tumor necrosis factor
                     ligand 1f"
                     /codon_start=1
                     /product="tumor necrosis factor isoform 1"
                     /protein_id="NP_038721.1"
                     /db_xref="CCDS:CCDS28691.1"
                     /db_xref="GeneID:21926"
                     /db_xref="MGI:MGI:104798"
                     /translation="MSTESMIRDVELAEEALPQKMGGFQNSRRCLCLSLFSFLLVAGA
                     TTLFCLLNFGVIGPQRDEKFPNGLPLISSMAQTLTLRSSSQNSSDKPVAHVVANHQVE
                     EQLEWLSQRANALLANGMDLKDNQLVVPADGLYLVYSQVLFKGQGCPDYVLLTHTVSR
                     FAISYQEKVNLLSAVKSPCPKDTPEGAELKPWYEPIYLGGVFQLEKGDQLSAEVNLPK
                     YLDFAESGQVYFGVIAL"
     exon            354..408
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /inference="alignment:Splign:2.1.0"
     exon            409..456
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /inference="alignment:Splign:2.1.0"
     exon            457..1653
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1625..1630
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /note="hexamer: AATAAA"
     polyA_site      1648
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /note="major polyA site"
ORIGIN      
        1 agcagaagct ccctcagcga ggacagcaag ggactagcca ggagggagaa cagaaactcc
       61 agaacatctt ggaaatagct cccagaaaag caagcagcca accaggcagg ttctgtccct
      121 ttcactcact ggcccaaggc gccacatctc cctccagaaa agacaccatg agcacagaaa
      181 gcatgatccg cgacgtggaa ctggcagaag aggcactccc ccaaaagatg gggggcttcc
      241 agaactccag gcggtgccta tgtctcagcc tcttctcatt cctgcttgtg gcaggggcca
      301 ccacgctctt ctgtctactg aacttcgggg tgatcggtcc ccaaagggat gagaagttcc
      361 caaatggcct ccctctcatc agttctatgg cccagaccct cacactcaga tcatcttctc
      421 aaaattcgag tgacaagcct gtagcccacg tcgtagcaaa ccaccaagtg gaggagcagc
      481 tggagtggct gagccagcgc gccaacgccc tcctggccaa cggcatggat ctcaaagaca
      541 accaactagt ggtgccagcc gatgggttgt accttgtcta ctcccaggtt ctcttcaagg
      601 gacaaggctg ccccgactac gtgctcctca cccacaccgt cagccgattt gctatctcat
      661 accaggagaa agtcaacctc ctctctgccg tcaagagccc ctgccccaag gacacccctg
      721 agggggctga gctcaaaccc tggtatgagc ccatatacct gggaggagtc ttccagctgg
      781 agaaggggga ccaactcagc gctgaggtca atctgcccaa gtacttagac tttgcggagt
      841 ccgggcaggt ctactttgga gtcattgctc tgtgaaggga atgggtgttc atccattctc
      901 tacccagccc ccactctgac ccctttactc tgaccccttt attgtctact cctcagagcc
      961 cccagtctgt atccttctaa cttagaaagg ggattatggc tcagggtcca actctgtgct
     1021 cagagctttc aacaactact cagaaacaca agatgctggg acagtgacct ggactgtggg
     1081 cctctcatgc accaccatca aggactcaaa tgggctttcc gaattcactg gagcctcgaa
     1141 tgtccattcc tgagttctgc aaagggagag tggtcaggtt gcctctgtct cagaatgagg
     1201 ctggataaga tctcaggcct tcctaccttc agacctttcc agattcttcc ctgaggtgca
     1261 atgcacagcc ttcctcacag agccagcccc cctctattta tatttgcact tattatttat
     1321 tatttattta ttatttattt atttgcttat gaatgtattt atttggaagg ccggggtgtc
     1381 ctggaggacc cagtgtggga agctgtcttc agacagacat gttttctgtg aaaacggagc
     1441 tgagctgtcc ccacctggcc tctctacctt gttgcctcct cttttgctta tgtttaaaac
     1501 aaaatattta tctaacccaa ttgtcttaat aacgctgatt tggtgaccag gctgtcgcta
     1561 catcactgaa cctctgctcc ccacgggagc cgtgactgta atcgccctac gggtcattga
     1621 gagaaataaa gatcgcttgg aaaagaaatg tga
//
