LOCUS       NM_001271490            3446 bp    mRNA    linear   ROD 17-DEC-2024
DEFINITION  Mus musculus transcription factor E3 (Tfe3), transcript variant 5,
            mRNA.
ACCESSION   NM_001271490
VERSION     NM_001271490.1
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 3446)
  AUTHORS   Zhu,X., Wu,Y., Li,Y., Zhou,X., Watzlawik,J.O., Chen,Y.M.,
            Raybuck,A.L., Billadeau,D.D., Shapiro,V.S., Springer,W., Sun,J.,
            Boothby,M.R. and Zeng,H.
  TITLE     The nutrient-sensing Rag-GTPase complex in B cells controls humoral
            immunity via TFEB/TFE3-dependent mitochondrial fitness
  JOURNAL   Nat Commun 15 (1), 10163 (2024)
   PUBMED   39580479
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3446)
  AUTHORS   Raynor,J.L., Collins,N., Shi,H., Guy,C., Saravia,J., Ah Lim,S.,
            Chapman,N.M., Zhou,P., Wang,Y., Sun,Y., Risch,I., Hu,H., Kc,A.,
            Sun,R., Shrestha,S., Huang,H., Connelly,J.P., Pruett-Miller,S.M.,
            Reina-Campos,M., Goldrath,A.W., Belkaid,Y. and Chi,H.
  TITLE     CRISPR screens unveil nutrient-dependent lysosomal and
            mitochondrial nodes impacting intestinal tissue-resident memory
            CD8+ T cell formation
  JOURNAL   Immunity 57 (11), 2597-2614 (2024)
   PUBMED   39406246
REFERENCE   3  (bases 1 to 3446)
  AUTHORS   Patel,A.A., Kim,H., Ramesh,R., Marquez,A., Faraj,M.M.,
            Antikainen,H., Lee,A.S., Torres,A., Khawaja,I.M., Heffernan,C.,
            Bonder,E.M., Maurel,P., Svaren,J., Son,Y.J., Dobrowolski,R. and
            Kim,H.A.
  TITLE     TFEB/3 Govern Repair Schwann Cell Generation and Function Following
            Peripheral Nerve Injury
  JOURNAL   J Neurosci 44 (35), e0198242024 (2024)
   PUBMED   39054068
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3446)
  AUTHORS   Oliveira,A.N., Memme,J.M., Wong,J. and Hood,D.A.
  TITLE     Dimorphic effect of TFE3 in determining mitochondrial and lysosomal
            content in muscle following denervation
  JOURNAL   Skelet Muscle 14 (1), 7 (2024)
   PUBMED   38643162
  REMARK    GeneRIF: Dimorphic effect of TFE3 in determining mitochondrial and
            lysosomal content in muscle following denervation.
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3446)
  AUTHORS   Amarnani,A., Lopez-Ocasio,M., Dilshat,R., Anumukonda,K., Davila,J.,
            Malakhov,N., Huan,C., Magnusdottir,E., Steingrimsson,E. and
            Roman,C.A.
  TITLE     Mitf regulates gene expression networks implicated in B cell
            homeostasis, germinal center responses, and tolerance
  JOURNAL   Front Immunol 15, 1339325 (2024)
   PUBMED   38444862
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 3446)
  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   7  (bases 1 to 3446)
  AUTHORS   Macchi,P., Notarangelo,L., Giliani,S., Strina,D., Repetto,M.,
            Sacco,M.G., Vezzoni,P. and Villa,A.
  TITLE     The genomic organization of the human transcription factor 3 (TFE3)
            gene
  JOURNAL   Genomics 28 (3), 491-494 (1995)
   PUBMED   7490085
REFERENCE   8  (bases 1 to 3446)
  AUTHORS   Blair,P.J., Carpenter,D.A., Godfrey,V.L., Russell,L.B.,
            Wilkinson,J.E. and Rinchik,E.M.
  TITLE     The mouse scurfy (sf) mutation is tightly linked to Gata1 and Tfe3
            on the proximal X chromosome
  JOURNAL   Mamm Genome 5 (10), 652-654 (1994)
   PUBMED   7849405
REFERENCE   9  (bases 1 to 3446)
  AUTHORS   Roman,C., Matera,A.G., Cooper,C., Artandi,S., Blain,S., Ward,D.C.
            and Calame,K.
  TITLE     mTFE3, an X-linked transcriptional activator containing basic
            helix-loop-helix and zipper domains, utilizes the zipper to
            stabilize both DNA binding and multimerization
  JOURNAL   Mol Cell Biol 12 (2), 817-827 (1992)
   PUBMED   1732746
REFERENCE   10 (bases 1 to 3446)
  AUTHORS   Roman,C., Cohn,L. and Calame,K.
  TITLE     A dominant negative form of transcription activator mTFE3 created
            by differential splicing
  JOURNAL   Science 254 (5028), 94-97 (1991)
   PUBMED   1840705
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL671995.4, AK139756.1 and BC056358.1.
            
            Transcript Variant: This variant (5) uses an alternate splice site
            in the 5' exon, compared to variant 1, and initiates translation at
            a downstream in-frame start codon. The encoded isoform (c) has a
            shorter N-terminus, compared to isoform a. Variants 3, 4, and 5
            encode the same isoform (c).
            
            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 :: AK145029.1, SRR12282455.38922659.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849381, SAMN00849383
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-553               AL671995.4         72307-72859
            554-1214            AK139756.1         398-1058
            1215-3446           BC056358.1         1050-3281
FEATURES             Location/Qualifiers
     source          1..3446
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="X"
                     /map="X 3.5 cM"
     gene            1..3446
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /note="transcription factor E3"
                     /db_xref="GeneID:209446"
                     /db_xref="MGI:MGI:98511"
     exon            1..553
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     exon            554..667
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     exon            668..968
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     CDS             753..2156
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /note="isoform c is encoded by transcript variant 5"
                     /codon_start=1
                     /product="transcription factor E3 isoform c"
                     /protein_id="NP_001258419.1"
                     /db_xref="CCDS:CCDS72332.1"
                     /db_xref="GeneID:209446"
                     /db_xref="MGI:MGI:98511"
                     /translation="MSSSSSRVLLRQQLMRAQAQEQERRERREQAAAAPFPSPAPASP
                     AISVIGVSAGGHTLSRPPPAQVPREVLKVQTHLENPTRYHLQQARRQQVKQYLSTTLG
                     PKLASQALTPPPGPSSAQPLPAPETAHATGPTGSAPNSPMALLTIGSSSEKEIDDVID
                     EIISLESSYNDEMLSYLPGGTAGLQLPSTLPVSGNLLDVYSSQGVATPAITVSNSCPA
                     ELPNIKREISETEAKALLKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPEMR
                     WNKGTILKASVDYIRKLQKEQQRSKDLESRQRSLEQANRSLQLRIQELELQAQIHGLP
                     VPPNPGLLSLTTSSVSDSLKPEQLDIEEEGRPSTTFHVSGGPAQNAPPQQPPAPPSDA
                     LLDLHFPSDHLGDLGDPFHLGLEDILMEEEGMVGGLSGGALSPLRAASDPLLSSVSPA
                     VSKASSRRSSFSMEEES"
     exon            969..1214
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1215..1319
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1320..1437
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1438..1494
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1495..1570
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1571..1718
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     exon            1719..3427
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3387..3392
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /note="hexamer: AATAAA"
     polyA_site      3427
                     /gene="Tfe3"
                     /gene_synonym="bHLHe33; F830016E06Rik; mTFE3; Tcfe3;
                     Tfe-3"
                     /note="major polyA site"
ORIGIN      
        1 gtggtcactt cctgtggagt ttccccagcc caaggaggag ggggaagagg acgagaggga
       61 ggcgagcggt cgttcggggt taggttgggg ggtgtcggtc cgttcagggc gggtgatgac
      121 tcacggccca tcccatcttc ccgacgccgc ccgcccacgc agtgctagct ccatggctta
      181 acggaggagg cagcggcaaa cagggggagg gggactctta ttttgttagg gggaccgggc
      241 caaggcccga ccggcctggc agggctcgcc cggagccggg cgtcatgtct catgcagccg
      301 agccagctcg ggacgccgta gaggccagcg cggagggccc tcgagccgtg ttcctgctat
      361 tggaagagcg caggccagct gagtcggccc agctgctcag gtgcggggcc acctctgggg
      421 ccgggagtga caactgaggt tccccgggga ctcatctcag gacacggggg gtcctcgact
      481 ggggttggag actcttggcc taggcttgaa ggacgtcgga gtgcccatct tgggtgggcg
      541 cctcagaaat ctgcctgaat tctttgcttc cggaatccgg gattgttgct gatatcgagt
      601 tagaaaacat cctcgatcct gacagcttct acgagctcaa aagccaaccc ctatccctcc
      661 gctccagcct cccaatatca ctgcaggcca caccgaccac cccagctaca ctctctgcgt
      721 cgtcttctgc agggggctcc cggacccctg ccatgtcatc ttcttcatca cgggtcttgc
      781 tgcgtcagca gcttatgagg gcccaggctc aggaacagga gaggcgtgag cggcgggaac
      841 aggcagcggc cgctcccttc cccagccctg cgcccgcctc accagccatc tctgtgattg
      901 gcgtgtctgc tggtggccac acactgagtc gtccacctcc tgctcaggtg cccagggagg
      961 tactcaaggt tcagacccac ctcgagaacc ctacacgcta ccacctgcag caagctcgcc
     1021 ggcagcaggt caaacagtac ttgtctacca cacttgggcc caagctggct tcccaggctc
     1081 tcaccccacc accagggcct tccagtgccc agccacttcc tgcccctgaa actgctcatg
     1141 ccaccggtcc tacaggcagt gctcctaaca gccccatggc gctgctcacc attgggtcca
     1201 gctcagaaaa ggagattgat gatgtcattg atgagatcat cagcctggag tccagttaca
     1261 acgatgagat gctcagctat cttccaggag gcactgcagg gctgcagctc cccagcacgc
     1321 tgccggtgtc tggaaatcta cttgatgtgt acagcagtca gggagtggct accccagcta
     1381 tcaccgtcag caattcctgt ccagctgagc tgcctaacat caaacgcgag atctccgaaa
     1441 ccgaggcaaa ggcccttttg aaggagcgac agaagaaaga caatcacaac ctaattgaac
     1501 gacgcaggcg attcaacatt aacgatagga tcaaagagct gggcaccctc atccccaagt
     1561 ccaatgatcc ggagatgcgc tggaacaagg gcaccatcct gaaggcatct gtggattaca
     1621 tccgcaaatt acagaaggaa cagcaacgct ccaaagacct ggagagccgg cagcggtccc
     1681 tggaacaagc caaccgaagc ctgcagctcc ggattcagga gctagaactg caggcccaga
     1741 tccatggtct gccagtccct cccaacccag gactgctctc cctaaccacg agttcggtct
     1801 ctgacagcct caagccagaa cagctggaca ttgaggagga gggcaggcct agcacaacgt
     1861 tccatgtatc gggaggacct gcccagaacg ctcctccaca acagcctcca gcaccacctt
     1921 cggatgccct tctggaccta cactttccca gcgaccactt gggagacctg ggggacccct
     1981 tccacctagg gctagaggac attctgatgg aggaggaggg gatggtggga ggactgtcag
     2041 ggggtgccct gtccccactg cgggctgctt ctgaccccct gctttcttca gtatccccgg
     2101 ctgtttccaa ggccagcagc cgccgtagca gcttcagcat ggaagaggag tcctgatcag
     2161 gcctcactcc tccccctgga tgagaccctg ccttttttcc ctaccctcct gtgagactgt
     2221 cctgtccagg aaatctgggg gaagaggagt tgcaatcagg ccccaaccct gtaataggca
     2281 aggaggagga atcaggtgag gccctgcccc ctttccattc gtggggaaga aggcaggaga
     2341 gagctgggaa atcacagttc atcacttgag catcatagcc ttacccctcg cccctggtcc
     2401 tactcctgcc tcggtgatag aaggaggcag ggtaagggta tgcccctggc cactagagat
     2461 ccttagaaac aggtctctga aggaaaggag atgccaggat gctactccat tccttctctg
     2521 ggaattgcca gtccaacttt tcctggcact ggaagaaaaa aaataagtgt cccacccctg
     2581 gagggttaat ccctatctct tccttttgac ccctgacttg ttctggcaag gaacagaagt
     2641 aagggtgtga tccagcccgt ccccctggga cccatccctt ctctatagga aaagctcagc
     2701 gcaggtatta caggtatgga ggaattacta ggctctgatc tcccatgtag aggccccagt
     2761 cctaaccctg acccttagca ggacaccgtg caagcattcc attcggcagg gaggatcagt
     2821 tccttagctc cctgccttaa cctaggacca acctgggacc tgacctgtga ggactctgtg
     2881 ctgaccttat tcttggggaa gggaacagat tttgacctag atcaagtgta acttaggtcc
     2941 tcacccttgg gacgaccttg ccttttctgc cttgaggggc agttttggga gatgaaaggg
     3001 attagtgtgg acccagtcta ggcaccccag tacttccctt caccttgtag aaaatggtaa
     3061 tgaaagggca tgcccaggct ctttagcagc ccagggaaac agagaagtct cccttaaagg
     3121 cagggcctgg gaggaatggt ggcaaaggta taatgtatcc gtgttttgtt tgtgaatttt
     3181 ttattgaacc cacccactca gatgctaagt caaccctgac ctctgcccca tccacaccat
     3241 tctccattcg agagactacc cctgtttcag agccagtccc cacctagtcc cgtccctgcc
     3301 acctacaccc aaggtcttca gctttaagtt gctggggcca ggccccgagg agggtttact
     3361 gaggggtctg taggtttgac taaaataata aatgctaggc gtgtttgatg cgcttttaac
     3421 tttggcaaaa aaaaaaaaaa aaaaaa
//
