LOCUS       NM_001289774            3561 bp    mRNA    linear   ROD 06-FEB-2024
DEFINITION  Mus musculus RUN and FYVE domain containing 3 (Rufy3), transcript
            variant 1, mRNA.
ACCESSION   NM_001289774 XM_006535110
VERSION     NM_001289774.1
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 3561)
  AUTHORS   Hertz,N.T., Adams,E.L., Weber,R.A., Shen,R.J., O'Rourke,M.K.,
            Simon,D.J., Zebroski,H., Olsen,O., Morgan,C.W., Mileur,T.R.,
            Hitchcock,A.M., Sinnott Armstrong,N.A., Wainberg,M., Bassik,M.C.,
            Molina,H., Wells,J.A. and Tessier-Lavigne,M.
  TITLE     Neuronally Enriched RUFY3 Is Required for Caspase-Mediated Axon
            Degeneration
  JOURNAL   Neuron 103 (3), 412-422 (2019)
   PUBMED   31221560
  REMARK    GeneRIF: RUFY3, a neuronally enriched protein, is essential for
            caspase-mediated degeneration of TRKA+ sensory axons in vitro and
            in vivo. Deletion of Rufy3 protects axons from degeneration, even
            in the presence of activated CASP3 . Dephosphorylation of RUFY3 at
            residue S34 appears required for axon degeneration.
REFERENCE   2  (bases 1 to 3561)
  AUTHORS   Honda,A., Usui,H., Sakimura,K. and Igarashi,M.
  TITLE     Rufy3 is an adapter protein for small GTPases that activates a Rac
            guanine nucleotide exchange factor to control neuronal polarity
  JOURNAL   J Biol Chem 292 (51), 20936-20946 (2017)
   PUBMED   29089386
  REMARK    GeneRIF: Rufy3 is a physiological adapter for Rap2 and activates
            Tiam2/STEF in glycoprotein M6A-regulated neuronal polarity and axon
            growth.
REFERENCE   3  (bases 1 to 3561)
  AUTHORS   Dickinson,M.E., Flenniken,A.M., Ji,X., Teboul,L., Wong,M.D.,
            White,J.K., Meehan,T.F., Weninger,W.J., Westerberg,H., Adissu,H.,
            Baker,C.N., Bower,L., Brown,J.M., Caddle,L.B., Chiani,F., Clary,D.,
            Cleak,J., Daly,M.J., Denegre,J.M., Doe,B., Dolan,M.E., Edie,S.M.,
            Fuchs,H., Gailus-Durner,V., Galli,A., Gambadoro,A., Gallegos,J.,
            Guo,S., Horner,N.R., Hsu,C.W., Johnson,S.J., Kalaga,S., Keith,L.C.,
            Lanoue,L., Lawson,T.N., Lek,M., Mark,M., Marschall,S., Mason,J.,
            McElwee,M.L., Newbigging,S., Nutter,L.M., Peterson,K.A.,
            Ramirez-Solis,R., Rowland,D.J., Ryder,E., Samocha,K.E.,
            Seavitt,J.R., Selloum,M., Szoke-Kovacs,Z., Tamura,M., Trainor,A.G.,
            Tudose,I., Wakana,S., Warren,J., Wendling,O., West,D.B., Wong,L.,
            Yoshiki,A., MacArthur,D.G., Tocchini-Valentini,G.P., Gao,X.,
            Flicek,P., Bradley,A., Skarnes,W.C., Justice,M.J., Parkinson,H.E.,
            Moore,M., Wells,S., Braun,R.E., Svenson,K.L., de Angelis,M.H.,
            Herault,Y., Mohun,T., Mallon,A.M., Henkelman,R.M., Brown,S.D.,
            Adams,D.J., Lloyd,K.C., McKerlie,C., Beaudet,A.L., Bucan,M. and
            Murray,S.A.
  CONSRTM   International Mouse Phenotyping Consortium; Jackson Laboratory;
            Infrastructure Nationale PHENOMIN, Institut Clinique de la Souris
            (ICS); Charles River Laboratories; MRC Harwell; Toronto Centre for
            Phenogenomics; Wellcome Trust Sanger Institute; RIKEN BioResource
            Center
  TITLE     High-throughput discovery of novel developmental phenotypes
  JOURNAL   Nature 537 (7621), 508-514 (2016)
   PUBMED   27626380
  REMARK    Erratum:[Nature. 2017 Nov 16;551(7680):398. PMID: 29144450]
REFERENCE   4  (bases 1 to 3561)
  AUTHORS   Wei,Z., Sun,M., Liu,X., Zhang,J. and Jin,Y.
  TITLE     Rufy3, a protein specifically expressed in neurons, interacts with
            actin-bundling protein Fascin to control the growth of axons
  JOURNAL   J Neurochem 130 (5), 678-692 (2014)
   PUBMED   24720729
  REMARK    GeneRIF: We propose that Rufy3 may control mouse neuron axon
            development
REFERENCE   5  (bases 1 to 3561)
  AUTHORS   Koscielny,G., Yaikhom,G., Iyer,V., Meehan,T.F., Morgan,H.,
            Atienza-Herrero,J., Blake,A., Chen,C.K., Easty,R., Di Fenza,A.,
            Fiegel,T., Grifiths,M., Horne,A., Karp,N.A., Kurbatova,N.,
            Mason,J.C., Matthews,P., Oakley,D.J., Qazi,A., Regnart,J.,
            Retha,A., Santos,L.A., Sneddon,D.J., Warren,J., Westerberg,H.,
            Wilson,R.J., Melvin,D.G., Smedley,D., Brown,S.D., Flicek,P.,
            Skarnes,W.C., Mallon,A.M. and Parkinson,H.
  TITLE     The International Mouse Phenotyping Consortium Web Portal, a
            unified point of access for knockout mice and related phenotyping
            data
  JOURNAL   Nucleic Acids Res 42 (Database issue), D802-D809 (2014)
   PUBMED   24194600
REFERENCE   6  (bases 1 to 3561)
  AUTHORS   Okazaki,N., Kikuno,R., Ohara,R., Inamoto,S., Koseki,H., Hiraoka,S.,
            Saga,Y., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: III. the complete nucleotide sequences of 500 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 10 (4), 167-180 (2003)
   PUBMED   14621295
REFERENCE   7  (bases 1 to 3561)
  AUTHORS   Stryke,D., Kawamoto,M., Huang,C.C., Johns,S.J., King,L.A.,
            Harper,C.A., Meng,E.C., Lee,R.E., Yee,A., L'Italien,L.,
            Chuang,P.T., Young,S.G., Skarnes,W.C., Babbitt,P.C. and Ferrin,T.E.
  TITLE     BayGenomics: a resource of insertional mutations in mouse embryonic
            stem cells
  JOURNAL   Nucleic Acids Res 31 (1), 278-281 (2003)
   PUBMED   12520002
REFERENCE   8  (bases 1 to 3561)
  AUTHORS   Nelson,P.S., Pritchard,C., Abbott,D. and Clegg,N.
  TITLE     The human (PEDB) and mouse (mPEDB) Prostate Expression Databases
  JOURNAL   Nucleic Acids Res 30 (1), 218-220 (2002)
   PUBMED   11752298
REFERENCE   9  (bases 1 to 3561)
  AUTHORS   Suzuki,H., Fukunishi,Y., Kagawa,I., Saito,R., Oda,H., Endo,T.,
            Kondo,S., Bono,H., Okazaki,Y. and Hayashizaki,Y.
  TITLE     Protein-protein interaction panel using mouse full-length cDNAs
  JOURNAL   Genome Res 11 (10), 1758-1765 (2001)
   PUBMED   11591653
REFERENCE   10 (bases 1 to 3561)
  AUTHORS   Brady,K.P., Rowe,L.B., Her,H., Stevens,T.J., Eppig,J.,
            Sussman,D.J., Sikela,J. and Beier,D.R.
  TITLE     Genetic mapping of 262 loci derived from expressed sequences in a
            murine interspecific cross using single-strand conformational
            polymorphism analysis
  JOURNAL   Genome Res 7 (11), 1085-1093 (1997)
   PUBMED   9371744
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AK160820.1, BP765560.1 and AC121541.31.
            
            [WARNING] On Apr 4, 2024 this sequence was replaced by
            NM_001289774.2.
            
            On Jan 29, 2014 this sequence version replaced XM_006535110.1.
            
            Transcript Variant: This variant (1) encodes the longest 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 :: AK154941.1, SRR7652917.174619.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849380, SAMN00849381
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1159              AK160820.1         2-1160
            1160-1596           AK160820.1         1162-1598
            1597-2102           BP765560.1         202-707
            2103-3561           AC121541.31        17913-19371         c
FEATURES             Location/Qualifiers
     source          1..3561
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="5"
                     /map="5 43.77 cM"
     gene            1..3561
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /note="RUN and FYVE domain containing 3"
                     /db_xref="GeneID:52822"
                     /db_xref="MGI:MGI:106484"
     exon            1..437
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     CDS             110..2119
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /note="isoform 1 is encoded by transcript variant 1;
                     protein RUFY3; rap2 interacting protein x; singar;
                     singar1; single axon-regulated protein 1"
                     /codon_start=1
                     /product="protein RUFY3 isoform 1"
                     /protein_id="NP_001276703.1"
                     /db_xref="CCDS:CCDS80324.1"
                     /db_xref="GeneID:52822"
                     /db_xref="MGI:MGI:106484"
                     /translation="MAESPAPGAAAESCGEEQERGGERRPSEPLEPRGASARGADRED
                     EAGPSEPDSPVAAPFFLLYPGDGGAGFTARPPPQRAWRTPPSPGSPLPFLLLSYPSGG
                     SGGGGKHHPNYLMANERMNLMNMAKLSIKGLIESALNLGRTLDSDYAPLQQFFVVMEH
                     CLKHGLKAKKTFLGQNKSFWGPLELVEKLVPEAAEITASVKDLPGLKTPVGRGRAWLR
                     LALMQKKLSEYMKALINKKELLSEFYEVNALMMEEEGAIIAGLLVGLNVIDANFCMKG
                     EDLDSQVGVIDFSMYLKDGNSSKGSEGDGQITAILDQKNYVEELNRHLNATVNNLQTK
                     VDLLEKSNTKLTEELAVANNRIITLQEEMERVKEESSYLLESNRKGPKQDRTAEGQAL
                     SEARKHLKEETQLRLDVEKELELQISMRQEMELAMKMLEKDVCEKQDALVSLRQQLDD
                     LRALKHELAFKLQSSDLGVKQKSELNSRLEEKTNQMAATIKQLEQRLRQAERGRQSAE
                     LDNRLFKQDFGDKINSLQLEVEALTRQRTQLELELKQEKERKSQNRGTPGKGAQKPEL
                     RMDGKHRIQEENVKLKKPLEESHRLLTHPAEEQGQPSLSEKPQVCQLCQEDDSLTKNT
                     CRNCRGTFCNACTTNELPLPSSIKPERVCNPCHEQLIKQYSSSPP"
     exon            438..611
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            612..729
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            730..831
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            832..955
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            956..1017
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1018..1083
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1084..1153
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1154..1246
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1247..1330
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1331..1498
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1499..1596
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1597..1716
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1717..1813
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1814..1878
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1879..1906
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1907..1975
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
     exon            1976..3561
                     /gene="Rufy3"
                     /gene_synonym="2810428M05Rik; 6330416M07Rik; D5Bwg0860e;
                     Ripx; Rpipx"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aggcggcggc gaacggcgga cggtggcggc gcgggcacgg cggggcatcc gatcctcgcc
       61 gtgagcctcg ggcctggcga ggcggctgca ctgcgaagcc gcaagcgaga tggcagagtc
      121 gccggcgccc ggcgcggctg ctgaaagttg cggcgaagag caggagaggg gcggggagcg
      181 gcgcccctcc gagccgctgg aaccgcgcgg tgctagcgcc cgcggcgcgg accgggagga
      241 cgaggcgggg ccctcggagc cggactcgcc ggtggccgcc cccttcttcc tcctctaccc
      301 gggcgatgga ggcgcgggct tcacagcgcg cccgccaccg cagcgcgcct ggaggacccc
      361 gccgtcgccc ggctccccgc tgcccttcct gctgctgagc tacccgagcg gcggcagcgg
      421 cggcggaggc aagcaccatc ccaattatct catggctaac gaacgcatga acctgatgaa
      481 catggcaaag ctgagcatca agggcttgat tgaatcggct ctgaatctgg ggcggaccct
      541 ggactctgac tacgcacctc tccagcagtt tttcgtggtg atggaacact gcctgaaaca
      601 cggcttgaaa gccaagaaaa cttttcttgg acaaaataaa tccttctggg ggcctctaga
      661 gctggtggag aagcttgttc cagaagctgc agaaataaca gcgagtgtaa aagacctccc
      721 aggactcaag acaccagttg gcagaggaag agcctggctt cggttggcat tgatgcaaaa
      781 gaagctttct gagtatatga aagccttgat caataagaag gaacttctca gtgagttcta
      841 tgaagtcaat gccctcatga tggaagaaga aggagctatt atcgctggtc tcctggtggg
      901 tctgaatgtc atcgatgcca atttctgcat gaaaggagaa gacctggact ctcaggttgg
      961 agttatagat ttttcgatgt atctcaaaga tggaaacagt agtaaaggta gtgaagggga
     1021 tggacagatt actgcgatcc tagaccagaa gaactatgta gaagaactca acagacatct
     1081 gaatgcaact gtaaacaacc ttcagacaaa agtagatctg ttagaaaaat ccaacactaa
     1141 attgacagaa gaacttgccg ttgccaacaa cagaattatt accttacaag aagaaatgga
     1201 acgagttaaa gaagaaagct cctatctact ggaatccaat cggaagggtc ctaaacaaga
     1261 cagaactgca gaagggcaag cgctgagcga agccagaaag catctaaagg aggagacaca
     1321 gttaagattg gatgtcgaga aggagctgga gctgcagatc agcatgaggc aggagatgga
     1381 actggctatg aagatgctgg agaaggatgt ctgtgagaag caggatgccc tggtgtctct
     1441 gcggcagcag ctggacgatc tccgggctct taagcatgag ctcgccttta aactgcagag
     1501 ttcagaccta ggagtgaaac agaaaagtga attaaacagt cgcttggaag aaaagaccaa
     1561 tcagatggct gccaccatta aacagctgga gcaaagattg cgccaggctg agcgaggccg
     1621 ccagtctgct gagctggaca accggctctt caaacaggac tttggagaca agatcaacag
     1681 tctgcagctg gaagtggagg cgctcaccag gcagcggact cagctggagt tagaactgaa
     1741 acaagaaaag gagaggaagt cacaaaacag gggcacccca gggaaggggg cccagaagcc
     1801 agagctgcgc atggatggga agcacagaat ccaagaggaa aacgttaaac taaagaagcc
     1861 gctggaagaa agccacaggc ttctgactca ccctgcagag gaacagggtc agccttcgct
     1921 ctctgaaaag ccacaggtgt gtcagctgtg ccaggaagac gacagcctga caaagaacac
     1981 gtgtagaaac tgcagaggaa ccttctgtaa cgcctgcaca acaaatgaac tgcctcttcc
     2041 gtcaagcatc aagcctgagc gagtgtgcaa tccttgtcac gagcagctga taaagcagta
     2101 ctccagcagc ccaccctaag acggaggcga caccaggcca gagtgttgat gccgggcggg
     2161 ccttgctcgc acatggtaga cgcaaggtgc cctggaaccc agtctttaga accaacccta
     2221 gttggtagga aagacagaag taaaccaggt cggtgtctag ggggaaggca gagctcagag
     2281 gtgctctgac ctttgctcat cttctctaat gagtgcgtaa ataaaagttg ctgagccttt
     2341 cccttcaaca cctaaacaag cccatcttgg agaacttatc agcgtatctt tgggctttgt
     2401 tttgttttgt ttttccagac agggtttctc tgtatagccc tggctgtcct ggaactcact
     2461 ttgtagacca ggctggcctc gaactcagaa atccacctgc ctctccctcc cgagtgctgg
     2521 gattgaaggc gtgcaccacc acgcccagca tctttgagca tttttatttc gatgaagtga
     2581 taaagctggg ctgtagctga gtggagaagc actgcccagc cagtgtgagg tcgcgctttc
     2641 tactgcagca ccactgccaa gaaagcagca ttgcatatgc gatctgaggg gcgacctgaa
     2701 tgttaagggg gaaaaaaaat aacaagtgct gcccggcact gctagacagt ttcctctcag
     2761 ctctcaggac ccacctcttt accaaactgt gaacccaatc tcagggaaag gaatcaagag
     2821 taatataaat tttgaatgta ttgataatgg cattataact tcaggaccag gtgatttttt
     2881 tttttttttt ggttgtacct acaagagttt tctttatgtg aacattggtt gcttcccacc
     2941 agatggctcc agaagtaagt atatgcactt tcagaatccc tcccacagag caagccaagg
     3001 gccctgccca gtccctccct cttgagccat aaaggacagt aacacttttc aaagacgggg
     3061 ttcaccttgc aagtagacga ttaaagtaaa gctaagccag gtacacagaa catcagctct
     3121 gacttattaa tggctgaggg cagtcagcac agcactcatt gaactgttga ttggatgagc
     3181 agtccatatt ctgaactaca gatcagaagc cacaggcagg gacaatagca aacatctctt
     3241 tgtgacaaac ctttgcggaa aagtgggggt acactgaata aaagatggaa agaaatggtt
     3301 tagttatagt ggttatgttg tatagttgta tatctggatt gtctaagact tgggaaaaca
     3361 tgagtctatg caggtttaga attctggggt aaattctgga ggaaaaatgg caacaaatcc
     3421 tgtctcctga aaagggttaa aacctgggaa aggcattatg atttcagaag tctaacctgc
     3481 tggtgaagat gaagtttaag agttaaagtt aggggaaata aaattagtac tactaaccta
     3541 ttgtgttggt tgtcttctct t
//
