LOCUS       XM_039096421            6210 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus piggyBac transposable element derived
            1 (Pgbd1), mRNA.
ACCESSION   XM_039096421
VERSION     XM_039096421.1
DBLINK      BioProject: PRJNA677964
KEYWORDS    RefSeq; corrected model.
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_051352.1) 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_039096421.2.
            
            ##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##
            
            ##RefSeq-Attributes-START##
            frameshifts          :: corrected 2 indels
            internal stop codons :: corrected 4 genomic stop codons
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1535              JACYVU010000293.1  169120-170654
            1536-1684           JACYVU010000293.1  172788-172936
            1685-1742           JACYVU010000293.1  186523-186580
            1743-1884           JACYVU010000293.1  195116-195257
            1885-1886           "NN"               1-2
            1887-2163           JACYVU010000293.1  195258-195534
            2164-6210           JACYVU010000293.1  195537-199583
FEATURES             Location/Qualifiers
     source          1..6210
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="17"
                     /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..6210
                     /gene="Pgbd1"
                     /note="piggyBac transposable element derived 1; The
                     sequence of the model RefSeq transcript was modified
                     relative to its source genomic sequence to represent the
                     inferred CDS: inserted 2 bases in 1 codon; deleted 2 bases
                     in 1 codon; Derived by automated computational analysis
                     using gene prediction method: Gnomon. Supporting evidence
                     includes similarity to: 3 ESTs, 1 Protein, and 98%
                     coverage of the annotated genomic feature by RNAseq
                     alignments, including 3 samples with support for all
                     annotated introns"
                     /db_xref="GeneID:103694097"
                     /db_xref="RGD:9394854"
     CDS             1603..3306
                     /gene="Pgbd1"
                     /note="The sequence of the model RefSeq protein was
                     modified relative to its source genomic sequence to
                     represent the inferred CDS: inserted 2 bases in 1 codon;
                     deleted 2 bases in 1 codon; substituted 4 bases at 4
                     genomic stop codons"
                     /codon_start=1
                     /transl_except=(pos:1843..1845,aa:OTHER)
                     /transl_except=(pos:2026..2028,aa:OTHER)
                     /transl_except=(pos:2170..2172,aa:OTHER)
                     /transl_except=(pos:2179..2181,aa:OTHER)
                     /product="LOW QUALITY PROTEIN: piggyBac transposable
                     element-derived protein 1"
                     /protein_id="XP_038952349.1"
                     /db_xref="GeneID:103694097"
                     /db_xref="RGD:9394854"
                     /translation="MYEVLPGSPPEGSLVTVKVEDPTWKQPELDPFEEMVQTGKNSRI
                     PNRDCAPHIPGSATSPTEKTISNLNTVGSYHPPCDSXAKMHIASLQYMAGXREKDKSR
                     VSELLQGLAFSDDSEAEEDSDPEVQPERKLKASNMPEKSXTKRDIKPNFPSWSALDSG
                     LLSLKSEKLNPVELFELFFDDETFNLIIQXNQXFNETNNYASQKNVNLEVTLQEMWCV
                     FGVLLWSGFVMHPRMGMYWEISDSDQTLVRNAIRRDRFELIFSYLHFAGNSHLHQKDK
                     FSILRPLIKQMNKNFLLYAPRLEEYYCFDKSMCECFDSDQFLNGKPLRIGYKIWCGTT
                     TQGYLVWFEPYQEYSAVETDKELDLGLGGNLIMSFADVLLEKGHYPYHLCFESFFTSV
                     KLMSALKKKGVKATGSIRENRMEKCPLMNVEHMKKMKRGHFNFRVEENDEIFLFHWHG
                     DSFISLCSNAVGIEPVSEISCVANGKASPQVSQPSIVNLYEKCRKGVAKMDQIISRYR
                     VGLRSKKRSLGLVSYMINVAMNNAWQLHRICNPGSPLDLLGFWKCVACFYLGHDINLS
                     D"
ORIGIN      
        1 catagccatg taaaatggta gagctggtaa tgcacagcta taatccccct ggggtgggga
       61 atcccattgt agctgcatca atgagcccca agattaataa gaaaccttgt ctaaaaaaat
      121 aaggtgaaga gttacagaga gacgcctctg gcatcgacct ctgacctctg cacccacatg
      181 cacatgtgga ctctcataaa catacagaac aatatatttt taagctgcta tggaaaaaga
      241 agtctgctgt tttagtcaaa taaataaagt gaaaatttac atttttaatt tccataagta
      301 cttcaaaaag ctattctcac tgaacaaaac gttcccaaaa tgtcctgaga aaacatctat
      361 ataaaggttg tgtaggtgga tcgccagtaa gggtgcttgg cccaggcctg acaacctgag
      421 ttcaatcctt gggacccaca tagcaagaga gaaccaactc caggttgtca tatgatctcc
      481 cattcgagta tgtaggaagt aaatgtaaat atggttaact cttgaattga tgctacctgg
      541 attttcgcac gcatataaaa cttgtatgtt caccttgggg ctttgttggc tatttaccca
      601 tctgactgac tgcacaagac cctgtaaagg ccaactcaac tttgtcttta tggatgtcag
      661 tctaggaaag tttttttctc atggtgctgg ggactgaacc cagtaagtgt gtcaagtaag
      721 aactctccct caggtacata ccatggtttg ttgttgttgt tgaaatgttt tacgtaaatg
      781 tgcgcgtgtt tgatctcttc aaactaccag gagaggtgcg gggcaggaaa atcacgacct
      841 cgctccaccg gtgcaccaga gactgtcacc aggctcctac agcgacaacc ggaagttgcc
      901 gttgggtctc cagctccgtc tacaggaagt gccccctatc cttcatccct ttgggcccct
      961 tccagccgag ctgcatgtct ctgctcggag actaacagca agtaacgccc ggctgtggcg
     1021 ctctgacctc ttggctcctt tttagcagct tttttcatga gctgcacatc ctcgtagccc
     1081 acattcccta aacttttaag tagctaatag acacagctac gctgctgggc gctggcatat
     1141 agtcttagcg tagatctggg cacgttagaa ccctggctaa tgcaccacag gtacatctat
     1201 tacattcgtc aaaaagtgta ctggtctttt ggggtaccag agtgtgctgc aattctagag
     1261 tctatgtaga ggtctatcag gagcaggagt ggctatgcag tgatctgcaa taaatgctgg
     1321 agaacgaagt ccggtgcaca cccggttacc acctgtgtgg ctcagttttc ccattcgtat
     1381 attaggtttg agggtggcca caaaagatta tgcacgtaca gagcaggtca tatgtcagcg
     1441 ggaatttaca ttaaaaggat ggaccaaaac aaagtgggaa ggaaaactgt caccctgtag
     1501 tgaattcgag gaattgggaa gcccatgttt ttctgatgtt catttacaaa tacatttctg
     1561 aagcacagac ttcagacagc cgaaccagct tctaagttca acatgtatga agttttgccg
     1621 ggttctcctc ctgaaggcag ccttgtgaca gtgaaggtgg aagatcccac ctggaagcag
     1681 ccagagctgg acccttttga agaaatggta caaacgggga agaactcaag aatacccaat
     1741 agagattgtg caccccacat tcctggtagt gctacttccc ccactgaaaa gacaatttca
     1801 aatttaaaca ctgttgggag ctaccaccca ccctgtgact cctaggccaa gatgcacatt
     1861 gcgtccttgc agtacatggc cggcnngagg gaaaaagaca aatctcgagt gagtgagctg
     1921 ctccaaggcc ttgcattttc tgatgattca gaggcagagg aagacagtga ccctgaggtg
     1981 cagcctgaga gaaagctaaa ggcatccaac atgcctgaga agagctagac gaaaagagac
     2041 attaagccca actttccaag ctggtcagca ctggattctg gacttttgag tctcaaaagt
     2101 gagaagttaa acccagtaga gctctttgaa ttattttttg atgatgaaac attcaactta
     2161 attattcaat gaaaccaata attcaatgaa accaataatt atgcttctca gaaaaatgtc
     2221 aacctggaag tcacattgca ggaaatgtgg tgtgtgtttg gtgtcctgct ctggagtgga
     2281 tttgtaatgc atcccagaat ggggatgtat tgggaaatct ctgattctga tcagactctg
     2341 gtgagaaatg ctattagaag agacagattt gaattaattt tctcatacct gcattttgca
     2401 ggtaatagcc acctacatca aaaagataag ttttcaatat tgagacctct cataaagcaa
     2461 atgaataaaa atttcctctt gtatgccccc cgcctagagg aatactattg ttttgacaag
     2521 tcaatgtgtg aatgctttga tagtgaccaa tttctgaatg gaaagcctct tagaattgga
     2581 tataaaattt ggtgtggtac aactacacaa ggctatctgg tttggtttga gccttaccaa
     2641 gaatattcag ctgtggaaac agataaggag ctggaccttg ggctaggtgg caatctaata
     2701 atgagttttg ctgatgttct tttggagaaa ggtcactatc cctatcactt gtgctttgaa
     2761 agcttcttta caagtgttaa actgatgtca gctttgaaga agaagggagt gaaggctaca
     2821 ggatcgattc gtgaaaacag aatggaaaaa tgtccactta tgaatgtgga acatatgaaa
     2881 aagatgaaga gggggcattt taatttcagg gtagaagaaa atgatgagat atttttattc
     2941 cattggcatg gtgacagctt tattagtctg tgttcaaacg ctgtaggcat agaaccagtg
     3001 agtgaaataa gctgtgtagc caacggtaaa gcatcccccc aggtgagcca accatccatt
     3061 gtgaacttat atgagaaatg caggaaaggt gtagctaaaa tggatcaaat tatttccaga
     3121 tacagggtgg gattaagaag taagaaacgg tccttgggtt tggttagtta catgatcaac
     3181 gtggccatga ataacgcatg gcagttacac agaatctgta acccaggctc tcctttagat
     3241 ctcttgggtt tctggaaatg tgtggcatgt ttttacttgg gacatgatat taatctgtct
     3301 gattaggaca tataaagtac acagtaacaa cacacaaaca cacaaattat aactgtaatt
     3361 agatctccat taccaaagca aatgtaatgg agaaggtatg attgcataac tggtattgtt
     3421 tacatcaaag atttttgcag ggaacaatat ttaaaaaaac attctgtgag tgttggattt
     3481 gtgttgcctt tatgtgtagt tttgtgtcag atatgtgaaa tgacttattt gttaaattat
     3541 tttatatatt aaaagaacaa aaacctacca ttcccccact gtcggttttg ttttagagat
     3601 tgacattttg aaaatgcaag caatatctat tctatagaat ggcactaagt ccacagccca
     3661 aaatagatac aaaagagata tacaagtcct gggggaagga tgttctaaca agacataggt
     3721 ataagggact aaatatctca gctgggccac actgtatgtt gagacaggac caggcatgga
     3781 aaattgctgt gtgtgtgtgt gtgtgtgtgt gtgtgtgtgt gtgtgtgtgt ctttaaatgc
     3841 tgaagaaaat gttattgcat aactaggagg tcaaagagga agatattgaa tcagtctgag
     3901 caacagttac cttgagaaga aagcaagtat aaggttagtg acataaagtc catgttaatg
     3961 tctcttaaaa tgaatgagtc gagattgagg tcagcagtgg ttattcatcc agtgaaagac
     4021 atttggagcg cgtgaactat gactccatag tgctgaggtc ttataggagt aaattagacc
     4081 aatgacaagg attctacatc atttctgtat ttagacacaa ttgattttct ctcaatttgt
     4141 tttattgtgt ttgtatctgt ggcaaagggt gtcttagtta cttttcagtt gctgagataa
     4201 cttctataaa aaaatgtatt tactgggggg taaaggtttc cgagggttag tgtttatgat
     4261 cgtcattgtg gggagtatag caggctggaa gggcgttggg caatagctga gtatttaaac
     4321 cttgatctac aagcacaagt gttaactagg aattttatgg tctttgaaac ttcaaagtca
     4381 gccctcagtg acacactctt ctaaaagact atacctaatt tttcccaaac agtttcaact
     4441 gaggactaaa tattcaagca tatgagccta tggggtcatt atcattcaaa caaccacaag
     4501 gggattattt tataatttgt cattattgtt ttaaatttat gagtcttgat tcacatgcat
     4561 ctgtgggcca tatgagaggg ggaagaaggt gttggatcgt ctggaactgg agttacagat
     4621 gactgggagc cactgtttgg gtgccgagaa ttgaacccag gtactctgaa aaagtagcca
     4681 gtgctcttaa ccaacgagcc atctctgaag tcctcttgaa gggcaagtgt aataatagat
     4741 tcattcgttc cacagaagct cctcagacta tattcctgtc actgaagtag actgagcgac
     4801 tctcccccct cttcactttc cccccaactt ctgcctcatt ccccctcctt ttttcagagt
     4861 atttgaaaca aagcaaaaca aagcaatagc ccaagctgtc cttgacgtta tgggaatact
     4921 tgctcagcct cctaaatgct gggatgacat acgtgggtga ccatgcctca tttggcttct
     4981 gctttaaagt catgccatga aagtggcatt gcagaaagag gtctcaggta aggactaata
     5041 aaggtttctg ctgatctgtt ccaaaggatg ctcactgttt accttgctgt gcccctgcac
     5101 taaacacatg atatttctgt ctacacttgc tgctcaaaca gtaccttaca tggtggcttt
     5161 tttcagtgta tgtccattac tagaaaatca gcttccaaag tatgtctcct acagcaccac
     5221 aggacggaaa ttacttgcta tgtactattc aggatattta aatttaatta gcaaattaac
     5281 tggaaaattt agcttaacca aataaatagc tgtatctttt tttccaaatg ccaacttaat
     5341 tttttaaaat cacatttatt tgtgtgtatg tgtgtgggta tacacatgct atgagtatgt
     5401 gtgtttatac agagttcagg gcacaaattc tccccatatg ggttctaaga atcatgaaaa
     5461 atcaggaggt acagatgtga tacacatgcc tactttaggc aaaatgctca tacaaataaa
     5521 ataaagccct tttgacacac acacagacac acacacacac acacacacac acacacacac
     5581 acacacacac acacaaatga tttattagaa aaagacacct gctgcctgag cctaatgaca
     5641 ggagttcaat ccccagatcc tacaaagcag agagagagaa ctaacttctc aatgcataga
     5701 ttaaatgaac tagagattcc tcacaagagg caacatgtca gttaacagtg ataaaaagtc
     5761 agaatcacca acatatgtcc actcacatta aagactgaga ctttcttttg gagtaagttt
     5821 gaccaacagt aaatgcaaat ttgaattctg tacttctcac cctatgtctt ctacttctcc
     5881 atatcttatc tgtatgttgt gaatatgtgt gtgtatcctg acctatctgt aatctgtcta
     5941 ttgtataaga ctctatctgt gccaacctga atattgtcct atcttctaga tctctcccta
     6001 acaaagggca ctactctgta ttttttgaac agatcataaa atgtcatatg gggaaggaat
     6061 gaaaatacag aaattgttaa tagagtttta caaggtattc ttgttggtgt ttaaatctca
     6121 gcgtgcaccc agacaaagca caccaaacga acatggttcc acgtggagag gtttaatgaa
     6181 gaggagtaga agaggggata tgctggacaa
//
