LOCUS       NM_001278601            1605 bp    mRNA    linear   ROD 04-MAR-2025
DEFINITION  Mus musculus tumor necrosis factor (Tnf), transcript variant 2,
            mRNA.
ACCESSION   NM_001278601
VERSION     NM_001278601.1
KEYWORDS    RefSeq.
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 1605)
  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 1605)
  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 1605)
  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 1605)
  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 1605)
  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 1605)
  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 1605)
  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 1605)
  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 1605)
  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 1605)
  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 CR974444.18 and BY167004.1.
            
            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 (2) lacks an alternate in-frame
            exon in the 5' coding region compared to variant 1. It encodes
            isoform 2 which is shorter compared to isoform 1.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            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 :: AK154223.1, BY747796.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN02415128, SAMN02415133
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-3                 CR974444.18        138000-138002       c
            4-400               BY167004.1         2-398
            401-408             CR974444.18        137079-137086       c
            409-1605            CR974444.18        135362-136558       c
FEATURES             Location/Qualifiers
     source          1..1605
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 18.59 cM"
     gene            1..1605
                     /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..827
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /note="isoform 2 is encoded by transcript variant 2;
                     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 2"
                     /protein_id="NP_001265530.1"
                     /db_xref="CCDS:CCDS70801.1"
                     /db_xref="GeneID:21926"
                     /db_xref="MGI:MGI:104798"
                     /translation="MSTESMIRDVELAEEALPQKMGGFQNSRRCLCLSLFSFLLVAGA
                     TTLFCLLNFGVIGPQRDEKFPNGLPLISSMAQTLTLTNHQVEEQLEWLSQRANALLAN
                     GMDLKDNQLVVPADGLYLVYSQVLFKGQGCPDYVLLTHTVSRFAISYQEKVNLLSAVK
                     SPCPKDTPEGAELKPWYEPIYLGGVFQLEKGDQLSAEVNLPKYLDFAESGQVYFGVIA
                     L"
     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..1605
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1577..1582
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Tnf"
                     /gene_synonym="DIF; TNF-a; TNF-alpha; Tnfa; TNFalpha;
                     Tnfsf1a; TNFSF2; Tnlg1f"
                     /note="hexamer: AATAAA"
     polyA_site      1600
                     /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 cacactcaca aaccaccaag
      421 tggaggagca gctggagtgg ctgagccagc gcgccaacgc cctcctggcc aacggcatgg
      481 atctcaaaga caaccaacta gtggtgccag ccgatgggtt gtaccttgtc tactcccagg
      541 ttctcttcaa gggacaaggc tgccccgact acgtgctcct cacccacacc gtcagccgat
      601 ttgctatctc ataccaggag aaagtcaacc tcctctctgc cgtcaagagc ccctgcccca
      661 aggacacccc tgagggggct gagctcaaac cctggtatga gcccatatac ctgggaggag
      721 tcttccagct ggagaagggg gaccaactca gcgctgaggt caatctgccc aagtacttag
      781 actttgcgga gtccgggcag gtctactttg gagtcattgc tctgtgaagg gaatgggtgt
      841 tcatccattc tctacccagc ccccactctg acccctttac tctgacccct ttattgtcta
      901 ctcctcagag cccccagtct gtatccttct aacttagaaa ggggattatg gctcagggtc
      961 caactctgtg ctcagagctt tcaacaacta ctcagaaaca caagatgctg ggacagtgac
     1021 ctggactgtg ggcctctcat gcaccaccat caaggactca aatgggcttt ccgaattcac
     1081 tggagcctcg aatgtccatt cctgagttct gcaaagggag agtggtcagg ttgcctctgt
     1141 ctcagaatga ggctggataa gatctcaggc cttcctacct tcagaccttt ccagattctt
     1201 ccctgaggtg caatgcacag ccttcctcac agagccagcc cccctctatt tatatttgca
     1261 cttattattt attatttatt tattatttat ttatttgctt atgaatgtat ttatttggaa
     1321 ggccggggtg tcctggagga cccagtgtgg gaagctgtct tcagacagac atgttttctg
     1381 tgaaaacgga gctgagctgt ccccacctgg cctctctacc ttgttgcctc ctcttttgct
     1441 tatgtttaaa acaaaatatt tatctaaccc aattgtctta ataacgctga tttggtgacc
     1501 aggctgtcgc tacatcactg aacctctgct ccccacggga gccgtgactg taatcgccct
     1561 acgggtcatt gagagaaata aagatcgctt ggaaaagaaa tgtga
//
