LOCUS       NM_001161723            2351 bp    mRNA    linear   ROD 09-JUL-2024
DEFINITION  Mus musculus transcription factor EB (Tfeb), transcript variant 3,
            mRNA.
ACCESSION   NM_001161723
VERSION     NM_001161723.1
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 2351)
  AUTHORS   Cai,H., Ma,G., Zhang,Z., Liu,G., Lu,R., Liu,Y., Wang,J., Wang,S.,
            Sun,S., E,M., Li,Z., Fang,S. and Yu,B.
  TITLE     A potential early-atheroprotective target: Irgm1 mediates
            lymphangiogenesis through LEC autophagy by Tfeb translocation
  JOURNAL   Biochim Biophys Acta Mol Basis Dis 1870 (6), 167238 (2024)
   PUBMED   38759815
  REMARK    GeneRIF: A potential early-atheroprotective target: Irgm1 mediates
            lymphangiogenesis through LEC autophagy by Tfeb translocation.
REFERENCE   2  (bases 1 to 2351)
  AUTHORS   Mao,Y., Jin,Z., Yang,J., Xu,D., Zhao,L., Kiram,A., Yin,Y., Zhou,D.,
            Sun,Z., Xiao,L., Zhou,Z., Yang,L., Fu,T., Xu,Z., Jia,Y., Chen,X.,
            Niu,F.N., Li,X., Zhu,Z. and Gan,Z.
  TITLE     Muscle-bone cross-talk through the FNIP1-TFEB-IGF2 axis is
            associated with bone metabolism in human and mouse
  JOURNAL   Sci Transl Med 16 (750), eadk9811 (2024)
   PUBMED   38838134
  REMARK    GeneRIF: Muscle-bone cross-talk through the FNIP1-TFEB-IGF2 axis is
            associated with bone metabolism in human and mouse.
REFERENCE   3  (bases 1 to 2351)
  AUTHORS   Naillat,F., Deshar,G., Hankkila,A., Rak-Raszewska,A., Sharma,A.,
            Prunskaite-Hyyrylainen,R., Railo,A., Shan,J. and Vainio,S.J.
  TITLE     Calcium signaling induces partial EMT and renal fibrosis in a
            Wnt4mCherry knock-in mouse model
  JOURNAL   Biochim Biophys Acta Mol Basis Dis 1870 (5), 167180 (2024)
   PUBMED   38653356
REFERENCE   4  (bases 1 to 2351)
  AUTHORS   Xiang,J., Liu,B., Li,Y., Ren,Y., Li,Y., Zhou,M., Yu,J., Luo,Z.,
            Liu,E., Fu,Z. and Ding,F.
  TITLE     TFEB regulates dendritic cell antigen presentation to modulate
            immune balance in asthma
  JOURNAL   Respir Res 25 (1), 182 (2024)
   PUBMED   38664707
  REMARK    GeneRIF: TFEB regulates dendritic cell antigen presentation to
            modulate immune balance in asthma.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2351)
  AUTHORS   Ren,X., Wang,J., Wei,H., Li,X., Tian,Y., Wang,Z., Yin,Y., Guo,Z.,
            Qin,Z., Wu,M. and Zeng,X.
  TITLE     Impaired TFEB-mediated autophagy-lysosome fusion promotes tubular
            cell cycle G2/M arrest and renal fibrosis by suppressing ATP6V0C
            expression and interacting with SNAREs
  JOURNAL   Int J Biol Sci 20 (5), 1905-1926 (2024)
   PUBMED   38481802
  REMARK    GeneRIF: Impaired TFEB-mediated autophagy-lysosome fusion promotes
            tubular cell cycle G2/M arrest and renal fibrosis by suppressing
            ATP6V0C expression and interacting with SNAREs.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2351)
  AUTHORS   Forrester,L.M., Nagy,A., Sam,M., Watt,A., Stevenson,L.,
            Bernstein,A., Joyner,A.L. and Wurst,W.
  TITLE     An induction gene trap screen in embryonic stem cells:
            Identification of genes that respond to retinoic acid in vitro
  JOURNAL   Proc Natl Acad Sci U S A 93 (4), 1677-1682 (1996)
   PUBMED   8643689
REFERENCE   7  (bases 1 to 2351)
  AUTHORS   Artandi,S.E., Merrell,K., Avitahl,N., Wong,K.K. and Calame,K.
  TITLE     TFE3 contains two activation domains, one acidic and the other
            proline-rich, that synergistically activate transcription
  JOURNAL   Nucleic Acids Res 23 (19), 3865-3871 (1995)
   PUBMED   7479029
REFERENCE   8  (bases 1 to 2351)
  AUTHORS   Steingrimsson,E., Sawadogo,M., Gilbert,D.J., Zervos,A.S., Brent,R.,
            Blanar,M.A., Fisher,D.E., Copeland,N.G. and Jenkins,N.A.
  TITLE     Murine chromosomal location of five bHLH-Zip transcription factor
            genes
  JOURNAL   Genomics 28 (2), 179-183 (1995)
   PUBMED   8530024
REFERENCE   9  (bases 1 to 2351)
  AUTHORS   Fisher,D.E., Carr,C.S., Parent,L.A. and Sharp,P.A.
  TITLE     TFEB has DNA-binding and oligomerization properties of a unique
            helix-loop-helix/leucine-zipper family
  JOURNAL   Genes Dev 5 (12A), 2342-2352 (1991)
   PUBMED   1748288
REFERENCE   10 (bases 1 to 2351)
  AUTHORS   Carr,C.S. and Sharp,P.A.
  TITLE     A helix-loop-helix protein related to the immunoglobulin E
            box-binding proteins
  JOURNAL   Mol Cell Biol 10 (8), 4384-4388 (1990)
   PUBMED   2115126
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC124830.8, AK078755.1, BC064789.1 and AC113536.10.
            
            [WARNING] On Jul 27, 2024 this sequence was replaced by
            NM_001161723.2.
            
            Transcript Variant: This variant (3) differs in the 5' UTR and
            coding sequence compared to variant 1. The resulting isoform (b) is
            shorter at the N-terminus compared to isoform a. Variants 2 and 3
            both encode isoform b.
            
            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 :: AK154971.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849380, SAMN00849381
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-274               AC124830.8         45919-46192         c
            275-1084            AK078755.1         213-1022
            1085-2001           BC064789.1         1032-1948
            2002-2002           AC113536.10        124866-124866       c
            2003-2351           BC064789.1         1950-2298
FEATURES             Location/Qualifiers
     source          1..2351
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 23.99 cM"
     gene            1..2351
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /note="transcription factor EB"
                     /db_xref="GeneID:21425"
                     /db_xref="MGI:MGI:103270"
     exon            1..274
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /inference="alignment:Splign:2.1.0"
     exon            275..506
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /inference="alignment:Splign:2.1.0"
     CDS             297..1724
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /note="isoform b is encoded by transcript variant 3"
                     /codon_start=1
                     /product="transcription factor EB isoform b"
                     /protein_id="NP_001155195.1"
                     /db_xref="CCDS:CCDS50133.1"
                     /db_xref="GeneID:21425"
                     /db_xref="MGI:MGI:103270"
                     /translation="MASRIGLRMQLMREQAQQEEQRERMQQQAVMHYMQQQQQQQQQL
                     GGPPTPAINTPVHFQSPPPVPGEVLKVQSYLENPTSYHLQQSQHQKVREYLSETYGNK
                     FAAHVSPAQGSPKPAPAASPGVRAGHVLSTSAGNSAPNSPMAMLHISSNPEKEFDDVI
                     DNIMRLDSVLGYINPEMQMPNTLPLSSSHLNVYSGDPQVTASMVGVTSSSCPADLTQK
                     RELTDAESRALAKERQKKDNHNLIERRRRFNINDRIKELGMLIPKANDLDVRWNKGTI
                     LKASVDYIRRMQKDLQKSRELENHSRRLEMTNKQLWLRIQELEMQARVHGLPTTSPSG
                     VNMAELAQQVVKQELPSEDGPGEALMLGPEVPEPEQMPALPPQAPLPSAAQPQSPFHH
                     LDFSHGLSFGGGGDEGPTGYPDTLGTEHGSPFPNLSKKDLDLMLLDDSLLPLASDPLF
                     STMSPEASKASSRRSSFSMEEGDVL"
     exon            507..761
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /inference="alignment:Splign:2.1.0"
     exon            762..842
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /inference="alignment:Splign:2.1.0"
     exon            843..963
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /inference="alignment:Splign:2.1.0"
     exon            964..1020
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /inference="alignment:Splign:2.1.0"
     exon            1021..1096
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /inference="alignment:Splign:2.1.0"
     exon            1097..1244
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /inference="alignment:Splign:2.1.0"
     exon            1245..2326
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2307..2312
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /note="hexamer: AGTAAA"
     polyA_site      2326
                     /gene="Tfeb"
                     /gene_synonym="bHLHe35; Tcfeb"
                     /note="major polyA site"
ORIGIN      
        1 tttctctctc ctgaacctct tgcagaagac ccctctggtt tcagcccctg atgcccctgg
       61 caaacttctc ctcttgcact atcccaccac cctagggaac cccaactcgg gtcgcaccct
      121 cggtgcacct tgctttctgc ttcctcgagc tcccagtcgt ctgccctcct ccctgagcca
      181 cactcttggt cctcaattcc ggaaaatacg cccccttttc cctgtctacc cccacactcg
      241 cactgtccaa ccccaggcta gcccgcccct tcagggagcc cgaaccaaca gctgccatgg
      301 cgtcacgcat cgggctgcgc atgcagctca tgcgggagca ggcccagcag gaggagcagc
      361 gagagcgcat gcagcagcag gctgtcatgc attatatgca acagcagcag cagcagcagc
      421 agcagctggg tgggcccccc accccagcca tcaacacccc tgtccacttc cagtcgcccc
      481 cgcctgtgcc cggggaggtg ctgaaggtgc agtcctacct ggagaacccc acctcctacc
      541 acctgcaaca gtcccagcat cagaaggttc gggagtatct gtctgagacc tatgggaaca
      601 agtttgctgc ccacgtgagc ccagcccaag gttccccgaa gcctgcccca gcagcatccc
      661 caggggtgcg ggctggacac gtactgtcca cctcggccgg caacagtgct cccaacagtc
      721 ccatggccat gctacatatc agctccaacc ccgagaaaga gtttgatgat gtcattgaca
      781 acattatgcg cctggacagc gtgctgggct acatcaaccc tgagatgcag atgcctaaca
      841 cgctgcccct gtctagcagc cacctgaacg tgtacagcgg tgacccccag gtcacagcct
      901 ccatggtggg tgtcaccagc agctcctgcc ctgccgacct gactcagaag cgagagctaa
      961 cagatgctga gagcagagcc ctggccaagg agcggcagaa gaaagacaat cacaacctaa
     1021 ttgagagaag acgcaggttc aacatcaatg accggatcaa ggagctggga atgctgatcc
     1081 ccaaggccaa cgacctggac gtgcgctgga acaaaggcac catcctcaag gcctctgtgg
     1141 attacatccg gaggatgcag aaggacctgc agaagtcccg ggagctggag aaccactccc
     1201 ggcgcctgga gatgactaac aagcagctct ggctccgcat ccaggagctg gagatgcagg
     1261 cacgcgtgca cggcctcccc accacctcgc cgtcgggtgt gaatatggcc gagctggccc
     1321 agcaggtggt gaagcaagag ttgcccagtg aggatggccc aggggaggcg ctgatgctgg
     1381 ggcctgaggt ccctgagcct gagcaaatgc cggctcttcc tccccaggct ccgctgccct
     1441 cggccgccca gccacagtct ccgttccatc acctggactt cagccatggc ctgagctttg
     1501 ggggtggggg cgacgagggg cccacaggtt accccgatac cctggggaca gagcacggct
     1561 ccccattccc caacctgtcc aagaaggatc tggacttaat gctcctagat gactccctgc
     1621 tccccctggc ctctgacccc ctcttttcta ccatgtctcc tgaggcctcc aaggccagca
     1681 gccgccggag cagcttcagc atggaggagg gtgatgttct gtgacgctgg ctgcccctgt
     1741 gccaaggagc aggggatgcc tggaggctgg gaggaccgag cagagccctc ccatccttca
     1801 ggctgcactt ggtgtgaagt agccgcctac cctgcctctc tccttcccct tggctgctac
     1861 ccccaccctg tttggactta gtgcctgcct ggcagctgat ggggctggag gagccctccc
     1921 cctcggcttc gggccccctc ctctggcggc agtactatga ctatgatggg gaagaacagg
     1981 ggtgaggcag aagagaaata agaagaaatc ctgctagggg agcccctctc ctgagcctgg
     2041 gctctcctgt ggaggacatt ttggagaagg aggtacaagt acctctgagg cagcagctgg
     2101 tctgggggtg cccgggcctg ccttcctggg actagatggc acccagcctg tcgccctcag
     2161 cctgaactcc cccacaagtg gggcatccac ccccatttgg tgctaacagc tctcccctgg
     2221 tggtatgagg gtggggtggc cagaagagga gtctgggttc agggtggcga gcacccccac
     2281 ccccagacct cccactttgt gcctttagta aacactgtgc tttgtaaaaa aaaaaaaaaa
     2341 aaaaaaaaaa a
//
