LOCUS       XM_003751566            4528 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus UPF1, RNA helicase and ATPase (Upf1),
            transcript variant X1, mRNA.
ACCESSION   XM_003751566
VERSION     XM_003751566.5
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_051351.1) annotated using gene prediction method: Gnomon,
            supported by mRNA and EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            On Jan 21, 2021 this sequence version replaced XM_003751566.4.
            
            ##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..4528
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="16"
                     /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..4528
                     /gene="Upf1"
                     /note="UPF1, RNA helicase and ATPase; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 2
                     mRNAs, 15 ESTs, 4 Proteins, and 100% coverage of the
                     annotated genomic feature by RNAseq alignments, including
                     229 samples with support for all annotated introns"
                     /db_xref="GeneID:684558"
                     /db_xref="RGD:1589127"
     CDS             262..3636
                     /gene="Upf1"
                     /codon_start=1
                     /product="regulator of nonsense transcripts 1 isoform X1"
                     /protein_id="XP_003751614.1"
                     /db_xref="GeneID:684558"
                     /db_xref="RGD:1589127"
                     /translation="MSVEAYGPSSQTLTFLDTEEAELLGADTQGSEFEFTDFTLPSQT
                     QTPPGGPGGAGGPGGAGAGGAAGQLDAQVGPEGILQNGAVDDSVAKTSQLLAELNFEE
                     DEEDTYYTKDLPVHACSYCGIHDPACVVYCNTSKKWFCNGRGNTSGSHIVNHLVRAKC
                     KEVTLHKDGPLGETVLECYNCGCRNVFLLGFIPAKADSVVVLLCRQPCASQSSLKDIN
                     WDSSQWQPLIQDRCFLSWLVKIPSEQEQLRARQITAQQINKLEELWKENPSATLEDLE
                     KPGVDEEPQHVLLRYEDAYQYQNIFGPLVKLEADYDKKLKESQTQDNITVRWDLGLNK
                     KRIAFFTLPKTDSGNEDLVIIWLRDMRLMQGDEICLRYKGDLAPLWKGIGHVIKVPDN
                     YGDEIAIELRSSVGAPVEVTHNFQVDFVWKSTSFDRMQSALKTFAVDETSVSGYIYHK
                     LLGHEVEDVVIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTS
                     ATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRLCAKSREAIDSPVSFLA
                     LHNQIRNMDSMPELQKLQQLKDETGELSSADEKRYRALKRTAERELLMNADVICCTCV
                     GAGDPRLAKMQFRSILIDESTQATEPECMVPVVLGAKQLILVGDHCQLGPVVMCKKAA
                     KAGLSQSLFERLVVLGIRPIRLQVQYRMHPALSAFPSNIFYEGSLQNGVTAADRVKKG
                     FDFQWPQPDKPMFFYVTQGQEEIASSGTSYLNRTEAANVEKITTKLLKAGAKPDQIGI
                     ITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQGI
                     GFLNDPRRLNVALTRARYGVIIVGNPKALSKQPLWNHLLSYYKEQKALVEGPLNNLRE
                     SLMQFSKPRKLVNTVNPGARFMTTAMYDAREAIIPGSVYDRSSQGRPSNMYFQTHDQI
                     SMISAGPSHVAAMNIPIPFNLVMPPMPPPGYFGQANGPAAGRGTPKSKTGRGGRQKNR
                     FGLPGPSQTTLPNSQASQDVASQPFSQGALTQGYVSMSQPSQMSQPGLSQPELSQDSY
                     LGDEFKSQIDVALSQDSTYQGERAYQHGGVTGLSQY"
ORIGIN      
        1 cggcggcggc ggttcctgtc cagggggctg agagcggcgg tcggctttga ggcgagcagc
       61 gttgcggagg ggcgcggcag cggcggcggc aactcagagc tcggagccgg agtccgggct
      121 ctgcttccag aggccggctc ggagcccgcc cggtcctcag ggcggcggca gcggctgctc
      181 cgggttacgg cctaggccta ggcgaagcct cgggctcgag tgcggtgagg cgccggcgga
      241 aggcgcggcc cgggcggcaa gatgagcgtg gaggcgtacg gccccagctc tcagacactc
      301 accttcttgg acactgagga ggccgagctg ctcggtgccg acacccaggg ctccgagttc
      361 gagttcaccg acttcaccct acccagccag acgcagacgc cccccggcgg ccccggcggc
      421 gcgggaggcc caggcggagc gggtgcaggc ggcgcggccg gccagctcga cgcgcaagtt
      481 ggaccagagg gcatcttgca aaatggggct gtggatgaca gtgtggccaa gaccagccag
      541 ctgctggctg agctgaactt cgaggaagat gaagaggaca catattatac caaggacctc
      601 ccagtccatg cctgcagtta ctgcggaatc catgatcctg cctgcgtggt ttactgtaat
      661 accagcaaga agtggttctg caacggccga ggaaatactt ctggcagcca cattgtaaat
      721 cacctcgtga gggcaaaatg caaggaagtg acgctgcaca aggacgggcc cctgggtgag
      781 acagtactgg agtgctacaa ctgtggctgc cggaacgtct tcctgctggg cttcatccct
      841 gcgaaggcgg actctgtggt ggtgctgttg tgcaggcagc cctgcgccag ccagagcagc
      901 ctgaaggaca tcaactggga cagctcccag tggcagcccc tgatccagga ccggtgcttc
      961 ctgtcatggc tggtcaagat tccctctgag caggagcagc tgcgagcacg acagatcact
     1021 gcacagcaga tcaacaagct ggaggagctc tggaaggaaa atccttcagc aaccctggag
     1081 gatctggaga agccgggcgt ggatgaggag ccgcagcacg tgctcctgcg gtacgaggat
     1141 gcttaccagt accagaacat cttcgggcca ctggtcaagc tggaggctga ctatgacaag
     1201 aagttgaagg agtcacagac tcaagataac atcacggtca ggtgggacct gggccttaac
     1261 aagaagagaa tcgccttctt cactttgccc aagactgact ctggtaatga ggatttagtc
     1321 ataatttggt taagagatat gcggctgatg cagggggatg agatctgtct gcggtacaaa
     1381 ggggatctgg cacccctatg gaaggggatt ggccacgtca tcaaggttcc cgataattat
     1441 ggtgatgaga ttgccattga actccgcagt agcgtgggtg cccccgtgga agtgacccac
     1501 aacttccaag tggattttgt gtggaagtca acctcttttg ataggatgca gagtgcattg
     1561 aagaccttcg ctgtggacga gacctctgtg tcagggtata tttaccacaa gctgctgggc
     1621 cacgaggtgg aagatgttgt catcaagtgc cagctgccaa agcgcttcac ggctcagggg
     1681 ctccccgacc tcaaccactc tcaggtgtat gctgtgaaga ctgtgctgca gagacccctc
     1741 agcctcatcc agggccctcc aggcacaggc aagactgtga catcagccac cattgtctac
     1801 caccttgctc ggcagggcaa tgggcccgtg ctagtctgtg ctccaagtaa cattgccgtg
     1861 gaccagctca cggagaagat ccaccagact gggctgaagg tcgtacgcct ctgtgccaag
     1921 agccgtgagg ccattgattc cccagtgtcc ttcctggctt tgcacaacca gatcaggaac
     1981 atggacagca tgcctgagct gcagaagctg cagcagctga aggatgagac aggcgagctg
     2041 tcatctgcag atgagaagcg gtaccgggcg cttaagcgca cagctgagag agaacttctc
     2101 atgaatgcag atgtcatctg ctgcacatgt gtgggtgctg gtgacccgag gctggccaag
     2161 atgcagttcc gttccatcct cattgacgag agcacccagg ccactgagcc tgagtgcatg
     2221 gtgcctgtag tccttggggc caagcagctg atcctcgtgg gtgaccactg ccagctgggc
     2281 ccagtagtga tgtgcaagaa ggcagccaag gccgggttgt ctcaatcgct cttcgagcgc
     2341 ttggtggtgc tgggcatccg gcccatccgc ctgcaggtgc aataccgcat gcaccctgca
     2401 ctcagcgcct tcccgtccaa catcttctac gagggctcgc tgcagaatgg cgtcactgca
     2461 gccgatcgtg tcaagaaagg ttttgacttc cagtggccac agcctgacaa gcccatgttc
     2521 ttctacgtga cacagggcca ggaggagatt gccagctctg gcacatccta cctcaacagg
     2581 acggaggcag ccaatgtgga gaagataacg acaaagctgc tgaaggcagg cgcgaagcct
     2641 gaccagattg gcatcatcac tccctacgag ggccagcgct cctacttggt gcagtacatg
     2701 cagttcagcg gctccctgca cacgaagctc taccaggaag tggagattgc aagcgtggat
     2761 gccttccagg gccgggagaa ggacttcatc atcctgtcct gcgtgcgtgc caatgagcac
     2821 cagggtattg ggttcttaaa cgacccccgg cgtctcaatg tggctctcac cagagcaagg
     2881 tacggggtga tcatcgtggg taacccaaag gcactgtcga agcagcccct gtggaaccac
     2941 ctgctgagct actacaagga gcagaaggcg ctggtggaag ggccgctcaa caacctgcgg
     3001 gagagcctca tgcagttcag caagcctcgc aagcttgtca acaccgtcaa tccgggggcc
     3061 cgcttcatga ctactgccat gtatgatgcc cgtgaggcta tcatccccgg atctgtctat
     3121 gaccgcagca gccagggccg gccctcaaac atgtacttcc agacccatga ccagattagc
     3181 atgatcagcg caggtcccag ccatgtggct gccatgaaca tccccattcc cttcaacttg
     3241 gtcatgcctc ccatgccacc acctgggtac ttcggacagg ccaacgggcc agctgctggt
     3301 cggggcaccc caaaaagcaa gactggccgt ggaggccgcc agaagaaccg ctttgggctt
     3361 cctgggccca gccagactac ccttcccaac agccaggcca gccaggatgt ggcctcacag
     3421 cccttttcgc agggtgccct cacacaaggt tatgtgtcca tgagccagcc ctctcagatg
     3481 agccagcctg gcctctccca gccagaattg tcccaggaca gctacctcgg tgatgagttt
     3541 aaatcacaga ttgacgtggc actctcacaa gactccacat accagggaga gcgggcatac
     3601 cagcacggcg gggtcaccgg gctgtcccag tactagaagg tagcggcgga agagctaagc
     3661 tatgtggctt agtctatcag catcttattc tgggtaataa aaaataaaaa taaatggata
     3721 cctgttttcc actgctaaaa ctgaagcacc actgtgtgag cagccgagga gaggagagga
     3781 gaggaaagag gagcaagagc gagcagagag cggccaggga ggacgacaga gcggagcgcc
     3841 gaggagcggg cgccccctgc gggcggcgag aggagagagg cccgcaccgc tgcgaggccg
     3901 gcccagcgcc gtgcccgcca gagggagagg cctcgccagg accggccccg ctgttctttt
     3961 tctttgtttc tcgtgattga ggggctacgt tttagcagga cgaacttcgc gtttctgtgc
     4021 ccaagcgggc ggccaagagc atcagcgcgc ggtcccagcg ctaaggggtt tcatttaaag
     4081 aaaatacggt gtttggggtt ttttctcttt tttttttttt ttcttttttt tttttccccc
     4141 tcaaagattc tttcaaagga gtatgggaag tacttggatg agtttgtctc taagacccga
     4201 ctggtggacc tgggagatga gagaagcttc cggagaggca gtgctgagaa gcccgagccc
     4261 cgcagcctgg gatcaccgcc aggaccgcag caggagggtt ttgagttgga gcttcagagg
     4321 ctacaggcga actcgtgagc acggcccgcg ggttcttccc catcgtgggt ggaggcctca
     4381 ttgctgggcg ccctgccccg gcccccccac ctcccgcggc agccacccaa cccctaccca
     4441 ggcacacctg cgccaacgca atggaactta atttttggtc aaatttgttt taagcttttt
     4501 gtcaccaata aaacatgaac aaacggtc
//
