LOCUS       XM_039103751            4504 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus SMG5 nonsense mediated mRNA decay
            factor (Smg5), transcript variant X1, mRNA.
ACCESSION   XM_039103751
VERSION     XM_039103751.1
DBLINK      BioProject: PRJNA677964
KEYWORDS    RefSeq.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
COMMENT     MODEL REFSEQ:  This record is predicted by automated computational
            analysis. This record is derived from a genomic sequence
            (NC_051337.1) annotated using gene prediction method: Gnomon,
            supported by EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            [WARNING] On Feb 22, 2024 this sequence was replaced by
            XM_039103751.2.
            
            ##Genome-Annotation-Data-START##
            Annotation Provider         :: NCBI RefSeq
            Annotation Status           :: Updated annotation
            Annotation Name             :: GCF_015227675.2-RS_2023_06
            Annotation Pipeline         :: NCBI eukaryotic genome annotation
                                           pipeline
            Annotation Software Version :: 10.1
            Annotation Method           :: Best-placed RefSeq; Gnomon;
                                           cmsearch; tRNAscan-SE
            Features Annotated          :: Gene; mRNA; CDS; ncRNA
            Annotation Date             :: 06/06/2023
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..4504
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="2"
                     /sex="male"
                     /tissue_type="kidney"
                     /geo_loc_name="USA: Wisconsin, Milwaukee, Medical College
                     of Wisconsin"
                     /collection_date="2019-03-08"
                     /collected_by="Rebecca Schilling"
     gene            1..4504
                     /gene="Smg5"
                     /note="SMG5 nonsense mediated mRNA decay factor; Derived
                     by automated computational analysis using gene prediction
                     method: Gnomon. Supporting evidence includes similarity
                     to: 83 ESTs, 3 long SRA reads, 3 Proteins, and 100%
                     coverage of the annotated genomic feature by RNAseq
                     alignments, including 43 samples with support for all
                     annotated introns"
                     /db_xref="GeneID:681012"
                     /db_xref="RGD:1584731"
     CDS             225..3281
                     /gene="Smg5"
                     /codon_start=1
                     /product="nonsense-mediated mRNA decay factor SMG5 isoform
                     X1"
                     /protein_id="XP_038959679.1"
                     /db_xref="GeneID:681012"
                     /db_xref="RGD:1584731"
                     /translation="MEVLALLRLVKKEELRDSCSLPLLTLAVVEAVHRLDLILCNKTA
                     YQEVFKPENVSLRNKLRELCVKLMFLHPVDYGRKAEELLWRKVYYEVIQLIKTNKKHI
                     HSRSTLECAYRTHLVAGIGFYQHLLLYIQSHYQLELQCCIDWTHVTDPLIGCKKPVSA
                     SGKEMDWAQMACHRCLVYLGDLSRYQNELAGVDTELLAERFYYQALSVAPQIGMPFNQ
                     LGTLAGSKYYSVEAMYCYLRCIQSEVSFEGAYGNLKRLYDKAAKMYHQLKKSETRKLS
                     PSKKRCKDIKRLLVNFMYLQSLLQPKSSSVDSELTSLCQSVLEDFNLCLFYLPSSPSL
                     GLTNEDEEECESGYAFLPDLLIFQMAIICLMGVHSLKRAGSKQYSAAIAFTLALFSHL
                     INHVNIRLQAELEEGENPVSAFQSDGTDEPESKEALEKEEPEPEPPTVVPQADEGRKS
                     RKHSRLSCLRRRRRHHPPKAGDDSDLSEGFESDSSHDSAQASDGSDSGSDKSLEGRGT
                     AFDAETDSEMNSQESRSDLEDIEDEEGTRSPAQEPPQTRSEVPDSLNGPLGPSEASIA
                     SNLQAMSTQMFQTKRCFRLAPTFSNLLLQPTAEPNSVASHRPCVNGDMEKPLEPASED
                     GSESEGSESSSRSCRNERSLQEKLQALMAEGLLPAVKVFLDWLRTNPDLIIVCAQSSQ
                     SLWNRLSVLLNLLPASGELQDSGLALCSEVQGLLEGCELPDLPASLLLPEDMALRNLP
                     PLRAAHRRFNFDADRPLLSALEESVVRICYIRSFGHFVARLQGSILQFNPEVGIFVSI
                     AQSEQESLLQQAQAQFRMAEEEARRNRLMRDMAQLRLQLEVSQLEGSLQQPKAQSAMS
                     PYLIPDTQALCYHLPVIRQLATSGRFIIIIPRTVIDGLDLLKKEQPGARDGIRYLEAE
                     FKKGNRYIRCQKEVGKSFERHKLKRQDADAWTLYKILDSCRQLTLAQGAGEEDPSGMV
                     TIITGLHLDNPSALSGPMQAALQAAAHASVDVKNVLDFYRQWKEIG"
ORIGIN      
        1 aggctagttc tgttggctag gaaggaggac tttgggtcca tcgtttccgg cacccagtga
       61 ctcagttctt ccttacaatc ttacgtccac agtcgcttat gtaggtagac tgtagatccc
      121 agagctgagt cacagtaaga tgaagagtgg agaccaagct gagttttctg ccttctagta
      181 ggaagtggag cttgggactt cccctttacc tcaggccctg ctgaatggag gtgcttgcac
      241 tgctcaggct tgtgaaaaag gaagagctgc gtgattcctg ttccctgcct cttctgactt
      301 tggctgtggt ggaggctgtg catcggctag acctcatcct ttgcaacaaa actgcttatc
      361 aggaagtgtt taaaccagag aacgttagcc tgaggaacaa gctgcgtgag ctctgtgtga
      421 agcttatgtt cttgcaccca gtagactatg ggaggaaggc tgaggaactg ctgtggagaa
      481 aggtatacta tgaagtcatc caactcatca agactaacaa aaagcacatc cacagtcgga
      541 gcaccttgga atgtgcctac aggactcacc tggtcgccgg cattggcttc taccagcatc
      601 tccttctcta tatccaatcc cactaccagc tggaactaca gtgctgcatt gactggactc
      661 atgtcactga tcccctcata ggatgtaaga agccagtatc tgcttcagga aaggagatgg
      721 attgggcaca gatggcatgc caccgatgtc tggtgtacct gggggatctg tcacgctatc
      781 agaatgaact ggctggtgtg gacactgagc tgctagctga gagattctac tatcaagcct
      841 tgtcagtcgc gccccagatt ggaatgccct tcaaccagct gggcactctt gcaggcagca
      901 agtattacag tgtggaagcc atgtactgtt acttgcgctg catccagtcg gaagtgtcct
      961 ttgagggagc ctatgggaac ctcaagagac tctatgacaa ggcagcaaaa atgtaccacc
     1021 agttgaagaa gtctgagacc aggaagctct cccctagcaa aaagcgatgc aaagacatta
     1081 agaggttgtt ggtgaacttc atgtacctac aaagcctgtt acagcccaaa agtagctctg
     1141 tggactcaga actgacctca ctttgccagt cagtcctaga ggatttcaac ctctgcctct
     1201 tctacctgcc ctcctcaccc agccttggtc tgacgaacga ggatgaggag gagtgtgaga
     1261 gtggatatgc tttcctgccc gacctgctca tctttcagat ggccatcatc tgccttatgg
     1321 gtgtgcacag tttaaaaaga gcaggatcca agcagtatag tgcagccatt gctttcaccc
     1381 tggccctctt ctcccacctt attaatcatg tcaacatacg actgcaggca gagctggaag
     1441 agggcgagaa ccctgtctca gcttttcaga gtgatggcac agatgaacca gagtcaaaag
     1501 aagcactaga aaaagaggag ccagagccag agcctcccac tgtggtgccc caagccgatg
     1561 agggtagaaa gagtcgtaag cactcccgac tctcttgtct tcgtcgccgc cgccgccacc
     1621 accctcctaa ggctggtgat gacagtgacc tgagtgaggg ttttgagtca gactctagcc
     1681 atgactctgc ccaggccagt gatggatcag acagtggctc tgacaagagc ctggaaggca
     1741 ggggcactgc ttttgatgca gaaacagact cagagatgaa cagccaggag tcccggtcag
     1801 acctggaaga tatagaggat gaagagggga cacggtctcc agcccaggag ccccctcaga
     1861 ccagatcaga ggttccagat tccctcaatg gccccttggg ccctagtgag gcaagcattg
     1921 ccagcaattt acaagccatg tccacccaga tgttccagac caagcgctgc ttccgactgg
     1981 ctcccacttt cagcaacctg ctcctgcagc ccaccgcaga acctaacagt gtggccagtc
     2041 ataggccttg tgtcaacggg gatatggaga aacctttaga accagcctct gaggatggct
     2101 ctgagtcaga ggggagcgag tccagcagcc gttcttgtcg caacgagcgc agccttcagg
     2161 agaagctgca ggccctgatg gctgagggcc tccttcctgc tgtgaaggtc ttcctggact
     2221 ggcttcgaac caaccctgac ctcatcattg tgtgtgcgca gagctctcaa agtttgtgga
     2281 accgcctgtc tgtgttgctg aatctgttgc cagcatctgg tgagctccag gattctggcc
     2341 tggctctgtg ttctgaagtc caaggtctcc ttgaaggctg cgagctgcct gacctccctg
     2401 ctagcctgtt gctcccagag gacatggcac tgcgtaacct acctcctctc cgggctgctc
     2461 atagacgctt taacttcgat gcagatcggc ccctgctcag tgctttagag gagtcggtgg
     2521 tgcgcatctg ctatatccgc agcttcgggc attttgttgc tcgcttacaa ggcagcatcc
     2581 tgcagttcaa tccagaggtt ggcatcttcg tcagcattgc tcagtctgag caggagagcc
     2641 tgctgcagca ggctcaggca cagttccgta tggcagagga ggaagctcgg cggaacaggc
     2701 tcatgagaga catggctcag ctacgattac agctcgaggt ctcccaactg gaagggagcc
     2761 tgcagcagcc caaagcccag tcagccatgt ctccctacct catccctgac acccaggccc
     2821 tctgctacca cctccctgtc atccgtcagc tcgccaccag cggccgcttc atcatcatca
     2881 ttccaaggac agtgattgat ggtctggatt tgctgaagaa agaacagcca ggggcccggg
     2941 acgggatccg gtacctggag gcagagttta aaaagggaaa cagatacatt cgctgccaga
     3001 aggaggtggg aaagagcttt gagcggcata agctgaagcg gcaggatgca gatgcctgga
     3061 ctctctataa gatcctggac agctgcagac agctaaccct agcccagggg gcaggggagg
     3121 aggacccaag tggcatggtg accattatca caggccttca tttggacaac cccagtgcac
     3181 tctctgggcc catgcaggct gccctacaag ctgctgccca tgccagtgtg gacgtcaaga
     3241 atgttctaga cttctacagg cagtggaagg agattggttg agactgtccc ctaggccctg
     3301 ctgtggggct gactccagat ttctcctgtt ctccctggcg accaggacta ccacctgtag
     3361 tcaccccacc acatgcagac tcactcgggc aaacaggaag gaaggccggc tgcactgagg
     3421 ctgcagggag ggcccaggag ccaatgggga ggatgggggc cctgttgcca aggagagatc
     3481 aggaaagtga gggaagtgct tggagtagga gtggcagtgg atcctggcca gccttccacc
     3541 ttagcccctg cagtccccag gggcaggggc aggggcaggc atgggtgtct gcatttcatt
     3601 ggagcagtcc tggacttctg agaggaaagg atgacaggag ggtggtgtcc tcacccaaca
     3661 tacagagtgg gtggagctgg gagcttggac cctagctctc agggaagagt tgggagatac
     3721 tgagtgtctg catggttctc tgcagacccc acccatcctc aaggaccccc tcttccttgt
     3781 ctcccatgag gaacagggca gctctggagc cagctgtggg ggctcttagg gaagcagggc
     3841 ctgcactctc ggaggcccta cttcctctct gctgctgccc gtcttccagg cccacttagg
     3901 gtgtgggcgg gcaggctggc gggctgtgtg ccagcagcca tcccttcctc atcagctcag
     3961 tcattgtgct ctgtactctt ggctgctgtg ctgggataag gggtgccaat gagggagcga
     4021 aggccaaggc cacccctctc accatccagg gagggctgga ggaagggtgg cagagaggca
     4081 agatccctgg aagctgctta ctcagggccc tcatccatcc tgactaccct ccttttgcct
     4141 gtccccagga ctagagccct ggtaggctga gcacaggctg gctcttggag tgtcaggtga
     4201 cacaggcgca gagatcatga atagcaccat gagagagctg taggggaggc tctggccagg
     4261 gtgaccccgc ctctacccct caggctggaa gcagagcata gctggggctg ggttcttctc
     4321 tgcctcccct cctctcccca actggcctag ccactttggc tgtgctcaga gaagctggct
     4381 tcctgccttc cactaagaaa gaaggtctgg gaaagccagg ggacagttgg ggtcaccaca
     4441 ttcccacttc tggcagactt gagattcaag catcacttaa taaagacccc ccttcccaag
     4501 tcca
//
