LOCUS       NM_001405361            6275 bp    mRNA    linear   ROD 06-AUG-2024
DEFINITION  Mus musculus tripartite motif-containing 9 (Trim9), transcript
            variant 7, mRNA.
ACCESSION   NM_001405361
VERSION     NM_001405361.1
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 6275)
  AUTHORS   McCormick,L.E., Evans,E.B., Barker,N.K., Herring,L.E., Diering,G.H.
            and Gupton,S.L.
  TITLE     The E3 ubiquitin ligase TRIM9 regulates synaptic function and actin
            dynamics in response to netrin-1
  JOURNAL   Mol Biol Cell 35 (5), ar67 (2024)
   PUBMED   38507236
  REMARK    GeneRIF: The E3 ubiquitin ligase TRIM9 regulates synaptic function
            and actin dynamics in response to netrin-1.
REFERENCE   2  (bases 1 to 6275)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   3  (bases 1 to 6275)
  AUTHORS   Bedogni,F. and Hevner,R.F.
  TITLE     Cell-Type-Specific Gene Expression in Developing Mouse Neocortex:
            Intermediate Progenitors Implicated in Axon Development
  JOURNAL   Front Mol Neurosci 14, 686034 (2021)
   PUBMED   34321999
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 6275)
  AUTHORS   Menon,S., Goldfarb,D., Ho,C.T., Cloer,E.W., Boyer,N.P., Hardie,C.,
            Bock,A.J., Johnson,E.C., Anil,J., Major,M.B. and Gupton,S.L.
  TITLE     The TRIM9/TRIM67 neuronal interactome reveals novel activators of
            morphogenesis
  JOURNAL   Mol Biol Cell 32 (4), 314-330 (2021)
   PUBMED   33378226
  REMARK    GeneRIF: The TRIM9/TRIM67 neuronal interactome reveals novel
            activators of morphogenesis.
REFERENCE   5  (bases 1 to 6275)
  AUTHORS   Boyer,N.P., McCormick,L.E., Menon,S., Urbina,F.L. and Gupton,S.L.
  TITLE     A pair of E3 ubiquitin ligases compete to regulate filopodial
            dynamics and axon guidance
  JOURNAL   J Cell Biol 219 (1) (2020)
   PUBMED   31820781
REFERENCE   6  (bases 1 to 6275)
  AUTHORS   Winkle,C.C., McClain,L.M., Valtschanoff,J.G., Park,C.S.,
            Maglione,C. and Gupton,S.L.
  TITLE     A novel Netrin-1-sensitive mechanism promotes local SNARE-mediated
            exocytosis during axon branching
  JOURNAL   J Cell Biol 205 (2), 217-232 (2014)
   PUBMED   24778312
REFERENCE   7  (bases 1 to 6275)
  AUTHORS   Yaguchi,H., Okumura,F., Takahashi,H., Kano,T., Kameda,H.,
            Uchigashima,M., Tanaka,S., Watanabe,M., Sasaki,H. and Hatakeyama,S.
  TITLE     TRIM67 protein negatively regulates Ras activity through
            degradation of 80K-H and induces neuritogenesis
  JOURNAL   J Biol Chem 287 (15), 12050-12059 (2012)
   PUBMED   22337885
REFERENCE   8  (bases 1 to 6275)
  AUTHORS   Tanji,K., Kamitani,T., Mori,F., Kakita,A., Takahashi,H. and
            Wakabayashi,K.
  TITLE     TRIM9, a novel brain-specific E3 ubiquitin ligase, is repressed in
            the brain of Parkinson's disease and dementia with Lewy bodies
  JOURNAL   Neurobiol Dis 38 (2), 210-218 (2010)
   PUBMED   20085810
REFERENCE   9  (bases 1 to 6275)
  AUTHORS   Berti,C., Messali,S., Ballabio,A., Reymond,A. and Meroni,G.
  TITLE     TRIM9 is specifically expressed in the embryonic and adult nervous
            system
  JOURNAL   Mech Dev 113 (2), 159-162 (2002)
   PUBMED   11960705
  REMARK    GeneRIF: TRIM9 is expressed in the mouse embryonic and adult
            nervous system
REFERENCE   10 (bases 1 to 6275)
  AUTHORS   Reymond,A., Meroni,G., Fantozzi,A., Merla,G., Cairo,S., Luzi,L.,
            Riganelli,D., Zanaria,E., Messali,S., Cainarca,S., Guffanti,A.,
            Minucci,S., Pelicci,P.G. and Ballabio,A.
  TITLE     The tripartite motif family identifies cell compartments
  JOURNAL   EMBO J 20 (9), 2140-2151 (2001)
   PUBMED   11331580
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC124733.4 and AC147241.2.
            
            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##
            RNAseq introns :: mixed sample support SAMN00849374, SAMN00849375
                              [ECO:0006172]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1007              AC124733.4         77174-78180
            1008-1103           AC147241.2         153491-153586       c
            1104-1226           AC147241.2         151496-151618       c
            1227-1337           AC147241.2         143058-143168       c
            1338-1491           AC147241.2         141781-141934       c
            1492-1649           AC147241.2         133535-133692       c
            1650-1788           AC147241.2         129287-129425       c
            1789-1821           AC147241.2         128459-128491       c
            1822-2010           AC147241.2         116263-116451       c
            2011-2052           AC147241.2         113668-113709       c
            2053-2076           AC147241.2         113245-113268       c
            2077-2380           AC147241.2         112182-112485       c
            2381-6275           AC147241.2         105758-109652       c
FEATURES             Location/Qualifiers
     source          1..6275
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="12"
                     /map="12 29.07 cM"
     gene            1..6275
                     /gene="Trim9"
                     /note="tripartite motif-containing 9"
                     /db_xref="GeneID:94090"
                     /db_xref="MGI:MGI:2137354"
     exon            1..1007
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     CDS             186..2639
                     /gene="Trim9"
                     /EC_number="2.3.2.27"
                     /note="isoform 7 is encoded by transcript variant 7;
                     tripartite motif-containing protein 9; E3
                     ubiquitin-protein ligase TRIM9; RING-type E3 ubiquitin
                     transferase TRIM9"
                     /codon_start=1
                     /product="E3 ubiquitin-protein ligase TRIM9 isoform 7"
                     /protein_id="NP_001392290.1"
                     /db_xref="GeneID:94090"
                     /db_xref="MGI:MGI:2137354"
                     /translation="MEEMEEELKCPVCGSFYREPIILPCSHNLCQACARNILVQTPES
                     ESPQSRRASGSGVSDYDYLDLDKMSLYSEADSGYGSYGGFASAPTTPCQKSPNGVRVF
                     PPAMPPPPTHLSPALAPVPRNSCITCPQCHRSLILDDRGLRGFPKNRVLEGVIDRYQQ
                     SKAAALKCQLCEKAPKEATVMCEQCDVFYCDPCRLRCHPPRGPLAKHRLVPPAQGRVS
                     RRLSPRKVSTCTDHELENHSMYCVQCKMPVCYQCLEEGKHSSHEVKALGAMWKLHKSQ
                     LSQALNGLSDRAKEAKEFLVQLRTMVQQIQENSVEFEACLVAQCDALIDALNRRKAQL
                     LARVNKEHEHKLKVVRDQISHCTVKLRQTTGLMEYCLEVIKENDPSGFLQISDALIRR
                     VHLTEDQWGKGTLTPRMTTDFDLSLDNSPLLQSIHQLDFVQVKASSPVPATPILQLEE
                     CCTHNNSATLSWKQPPLSTVAADGYILELDDGSGGQFREVYVGKETMCTVDGLHFNST
                     YNARVKAFNKTGVSPYSKTLVLQTSEAAGAHETKPMKDTDSEEQTLPFPVPSERLPLR
                     RMSPFSSTLNLQPSFPGRSYFDFRSSPHQLSLHSSLQSLNAPGCNFETQSASYSQLVD
                     IKKLLAVAWFAFDPGSAHSDIIFSNDNLTVTCSSYDDRVVLGKTGFSKGVHYWELTID
                     RYDNHPDPAFGVARIDVMKDMMLGKDDKAWAMYVDNNRSWFMHNNSHTNRTEGGITKG
                     ATIGVLLDLNRKTLTFFVNNEQQGPIAFENVEGLFFPAVSLNRNVQVSLWAPGLRACS
                     GCYFKVCPGAVKSPQAPAP"
     exon            1008..1103
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            1104..1226
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            1227..1337
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            1338..1491
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            1492..1649
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            1650..1788
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            1789..1821
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            1822..2010
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            2011..2052
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            2053..2076
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            2077..2380
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     exon            2381..6275
                     /gene="Trim9"
                     /inference="alignment:Splign:2.1.0"
     regulatory      6248..6253
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Trim9"
                     /note="hexamer: AATAAA"
     polyA_site      6275
                     /gene="Trim9"
                     /note="major polyA site"
ORIGIN      
        1 agcgcggagg ctcggtggct cacagagaga gcgcatcctg gggagtcggc gcctaggcga
       61 ccggggaagg cgccaccacc gccgccgctg gccaaggtgc tggccaccac aggcccatcg
      121 gctgcttcgc caggtcaggc cccctccgcc gcagccgctg ctgcctcgct tccagccagg
      181 tccccatgga agagatggaa gaagagttaa aatgccctgt gtgtggctcc ttctatcggg
      241 agcccatcat cttgccctgc tctcacaatt tatgtcaggc gtgcgcccgc aacatcctgg
      301 tgcagacccc ggagtccgag tccccccaga gccgccgggc ctcgggctct ggggtttctg
      361 actatgatta tctggacctg gacaagatga gcctgtacag cgaggcggac agcggctatg
      421 gctcctacgg aggtttcgcc agcgccccca ctaccccgtg ccagaagtcg cccaacggcg
      481 tccgcgtttt cccccctgct atgccgccac cgcccaccca cctgtcaccg gctttggccc
      541 ctgtgccccg caattcctgc atcacctgcc cccagtgcca ccgcagcctc attctggatg
      601 accgggggct ccgcggtttc cccaagaacc gcgtcctgga aggggtcatc gaccgctacc
      661 aacagagcaa agccgcggcc ctcaagtgcc agctctgcga gaaggcgccc aaggaagcca
      721 cggtcatgtg tgaacagtgc gatgtcttct actgcgaccc ttgccgtctg cgctgccacc
      781 cgccccgggg tcccctagcc aaacaccgtc tggtgccccc ggcccagggc cgcgtcagcc
      841 ggcggctgag cccgcgcaag gtctccacct gcacagacca cgagctggag aaccacagca
      901 tgtactgcgt gcaatgcaag atgcccgtgt gctaccagtg cctagaggag ggcaaacact
      961 ccagccacga agtcaaggct ttgggggcta tgtggaaatt gcacaagagc cagctctccc
     1021 aggccctgaa tggattgtcg gacagggcca aagaagccaa ggagttcctg gtgcagctcc
     1081 gcaccatggt acaacagatc caggaaaaca gtgtggagtt tgaggcctgc ctggtggccc
     1141 agtgtgatgc gctcatcgat gccctaaacc gaaggaaggc tcagctgctg gcccgggtca
     1201 acaaggagca tgaacacaag ctgaaggtgg ttcgggacca gatctctcac tgcacggtga
     1261 agctgcgtca gaccacgggc ctcatggagt actgcttgga agtgattaag gagaacgacc
     1321 ccagtggctt tttgcagatt tcagatgctc tcataaggcg agttcactta actgaggacc
     1381 agtgggggaa gggcaccctc actcccagga tgaccacaga ctttgatctg agcctggaca
     1441 acagccctct gctgcagtct attcaccaac tggacttcgt gcaagtgaaa gcctcctctc
     1501 cagtcccagc aacccccatc ctacagctgg aggagtgttg cacccacaac aacagtgcta
     1561 cgctgtcctg gaaacagccc cctctgtcca ccgtagccgc cgatggatac atcctggagc
     1621 tggatgacgg cagtggtggt cagttccggg aagtgtatgt tggaaaagaa acaatgtgca
     1681 cagtggacgg ccttcacttc aacagcacat acaacgctcg ggttaaggcc ttcaacaaaa
     1741 caggagtcag cccctacagc aagacactgg tcctccagac gtctgaggca gcgggagccc
     1801 atgagacaaa acctatgaag gacacagact cagaagaaca gaccctcccc tttccagtgc
     1861 cttcggaaag attgccgctc cgtaggatga gccctttctc ctccaccctt aatctacaac
     1921 ccagcttccc cgggaggtcc tactttgatt tccggtcctc accccaccag ctgagtttgc
     1981 attcttcttt acagtctctc aatgcaccgg gctgcaattt tgagacacaa tctgcatcct
     2041 actctcaatt agttgacatt aaaaagctgt tggcagtggc ttggtttgct tttgaccccg
     2101 gctcggccca ctccgacatc atcttctcca atgacaactt gacagtgacg tgcagtagct
     2161 acgatgaccg ggtggtgctg gggaaaaccg gcttctccaa aggcgtccac tactgggagc
     2221 tgaccataga tcgctatgac aaccaccctg atccagcatt tggcgtggct cgcatcgatg
     2281 tgatgaagga tatgatgtta gggaaggacg acaaagcttg ggcaatgtat gtggacaata
     2341 accggagctg gttcatgcac aacaactcgc acaccaacag aactgaagga gggatcacaa
     2401 aaggggccac catcggggtc ctcctcgact taaacagaaa gacattaacg tttttcgtca
     2461 acaatgaaca gcaaggcccc atagcgtttg agaacgtgga gggcctgttc ttccctgctg
     2521 tcagcctgaa caggaatgtg caggtaagct tgtgggcccc aggactaagg gcttgctcag
     2581 gttgctactt caaagtctgc ccaggggcag taaaatcccc ccaagcccca gctccgtgag
     2641 ggaagctggt ataagaccca gagtgagaca caccaaagac accttcccat gtgcctgcca
     2701 cagcccagtc agccacccac gggagacaga cgccttctct accctgtcta tttatccttt
     2761 gctctagttt cttctttaag tagacctgaa tgacttcaac agactggctg ctgagatggc
     2821 tcctaccagg ccccaggaat gcccaggaaa agcaaatctt aggcacttat cagaagtgtg
     2881 agctgctttt tgtccttcac tcttcattgt gcaacagggc tgggaagcag tagccccgcc
     2941 tgcgagttag atacttgcag tttcccatag agacagaaca aggggtcctt ctcgcccctt
     3001 tattcaacag ccatctgcag ggctctttga gcatgccagg ctctactgta aatatttgct
     3061 atccatcagc gggagaaaaa aaaaaaaaaa cagatacaaa ccttaccttc ctgaaactta
     3121 tattctggtt acagatcata accatgtgat ttctaaggta cgttagaggg tcagagtatg
     3181 gcaaagggat cagcaatact gggaacatgc taaataaaca gccacaggct taagcggggt
     3241 ggtcaatcag ctggtcttat tatagttgct gcttatctga gtcctgaagg agggaaggta
     3301 gcaagctgtg tagagatttc aaaacagaag gcatagcatg aggagctttg ggtgggcaga
     3361 gaatggtaaa gaggggattc atagcatgca aggaatgtgg gtgatgccct gccaaccact
     3421 gttagaattc agggcttcac tgccatcctg atttgggctt ctcattgccc gatataaacc
     3481 tcactaacct taaaatagga cctgagagtc aaacgctgta gggttcatgc cctagctaca
     3541 gccacagtct taaaagctct tttaagttgt ttcctgttta tgagtagggg tagtgaaact
     3601 gcttacagcc cagcgggacc tgatttccag cttcctgcaa ggagatggga ttatctgagg
     3661 agctggaatc taattcttca gaggtcagcc tgtacaccag gagatagaaa accttaaatt
     3721 tttataggag tcaatctaag aaaaacctcg ttcaaagttt ttcacctttt cagccatttc
     3781 ccttccaaag actatcatgc tggccatgct tcgggatttt caagggtgtt ctagtgcctt
     3841 tagacaaaga ctcttgatgg gggtgataca gataagaagg tagaaatggc catatttatg
     3901 atatgcttct agtgtttccc ataactctcc acatagtttg aggtagagta gaaattgttg
     3961 aaatagccta agtgcctata ttccttccca ctataaagcc tttcccgaaa tcacagatag
     4021 ataggttgga actcacagac aagctaatct gatctctgtc cacggacttg accgtgacct
     4081 gcagatgagc accttgacct cagccataag aaacgtaccc tccccccaac ctttttttaa
     4141 aagtgggtat tgtgtatcct gggtttggaa ggccactatg atggccaggc ttttagcaca
     4201 gctagtatcc tgctagaaga cccttcaatg tcttctagga tagatgttca agagaagtga
     4261 acaggccttt attgaactga gggcacacaa accacactgg cgttccctgc aagggtaagc
     4321 atggtgccct gcatagctta tagtctcatt ccccaggtca cgctccacac cgggcttccg
     4381 gtccccgact tctactccag ccgagcttcc atagcctaag ggtgtgctgt ggaggcactg
     4441 gctgtccctg agacggacag ccctgagcca gcagcctcag cggacagtcg tacaaggatg
     4501 agaagagctg gtcctcagcc gccatcttca cccttaaaag ctccgccctt tcccatcagc
     4561 ctctccgcat cactgaaccc aggctccctt cctcacccag aaactcgacc gcacagagga
     4621 gctcggcagc ccaccgctcc cctttgttct cacttccacg tgttgttttt ctttaattta
     4681 gtggggggtt ttgttgtttg tttttggttt ttttgtgtta acgtaggttg aattactttt
     4741 gattcttttc cgatcatgtt ttggtgactt acctacctac ctggcactgc caaaagaaat
     4801 tctcctggaa actttttttt cttgagcttt tggacaagca aagatgttct aggagagcag
     4861 gtgggaaaga agccagattt agagtttgcc gtttgacatc tagagtgttc ttgccctgat
     4921 tcttgtcgtg atgttagctc tttgtggcta cttcttggga ggtgagcaga gtgcacttgg
     4981 cgtccagaag tcttaataca acctgaagca caaatacatc ggctacactg gctcacggca
     5041 gggtaaggac ctttgacata ggctctaggc actgggaaaa ccaggagact caatgatttg
     5101 actcatatga ctaatacaag tttttaatta agaactacta tgatccaggc actgttcagg
     5161 acactagaat gctgtgttca tgaacaccct gtcttcctgg aacctatatt cttatgtaat
     5221 aaagcaacaa gtaacttcaa gttgttctaa gtaaggaaac atgcccaaga cggtgtcact
     5281 gacaaaccct gagattgatg ctgaacccac acactctggc tatcacacca gacaagtacc
     5341 aacccaatgc tttcccacca cactatctta actatggtct ctgctgtcac tcaccgcaga
     5401 gcccttcctt agcagaaatg atgtcagcat tgttactcat tagtgctgtg gtcataacaa
     5461 gccttaagaa ttgaatgtta aaaaacaaaa tgaccagaag gcacagggcc cagtcaccac
     5521 cccgggcctc tgaagttgca aaccacacca tttacatcct caggacaaac acaccatcgc
     5581 tgtgtctgct ctctgtgcct gttacaaatg agactccatc gctcactgct gtcacagcct
     5641 gactttctaa agaagctcaa atcgggtttg gaaaagcgta aacgtggatg tcactcctgg
     5701 caccaccgcg cttacgactc ctaacagagt agacaccctt cagatgtttc cgtttgacac
     5761 gaagttttag ggaacgtagg acctgtgtgg gggtgacttc tgattagttg tgtaaatact
     5821 ttccactgag ccaggaaccc gctagaataa tagtaaatga cagaagtggg atgggaaagt
     5881 ggacagcgct ttgacaaaaa ggaacctctg taaatagctc actcgctcat gtgcgtcctc
     5941 cgggtcatct ctgtcttggt gtttttctag ttagaaccta atttattgaa tgggtgctat
     6001 cctgtctctg tctgtctcgg gttcctgtgt ctacagaaca ctgttgtggg actatccttg
     6061 tttggtcttt gattgttcca atgagaatcc atggctgggc cgctagttac tctctttatt
     6121 aaatccatcc cccaggttag agttctagtg acttgtaaca aatagtttac aactgaacta
     6181 caactataga tgcatacaaa tatagatgca tactgtacta aaataaaaag gtcgttcctg
     6241 gtatgccaat aaagcgtttt tatgagagga aaaaa
//
