LOCUS       XM_039113376            4839 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus retrotransposon-like 1 (Rtl1), mRNA.
ACCESSION   XM_039113376
VERSION     XM_039113376.1
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_051341.1) annotated using gene prediction method: Gnomon,
            supported by mRNA evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            [WARNING] On Feb 22, 2024 this sequence was replaced by
            XM_039113376.2.
            
            ##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..4839
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="6"
                     /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..4839
                     /gene="Rtl1"
                     /note="retrotransposon-like 1; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 2
                     mRNAs, 1 Protein, and 99% coverage of the annotated
                     genomic feature by RNAseq alignments"
                     /db_xref="GeneID:108351300"
                     /db_xref="RGD:11378340"
     CDS             203..4804
                     /gene="Rtl1"
                     /codon_start=1
                     /product="retrotransposon-like protein 1"
                     /protein_id="XP_038969304.1"
                     /db_xref="GeneID:108351300"
                     /db_xref="RGD:11378340"
                     /translation="MIEPSEDSFETMMELKNPSSKQMESSEGSSNTVEEAPGNSGVQA
                     EEGSESGLAQEKMEPPSGPLEEMQELPTDLTQEPSTRPYEEGTNDQPEDMEETSDDSN
                     QESSDGSNHEFDNGSNHESSCGSNQESIDVSNLESSDVSNQESSYGLHQEASYSSNQE
                     ASYSSNQEASYSSNQEASYSSNQEASYSSNQEASYSSNQEASYSSNQEASYSSNQEAS
                     YSSNQETSDNSNQESSYGANQEASYSSNQESSYGANQESSDGSNQNSIDDSNRESSYG
                     SNQEESDPLSDVSDYSMNETMTSSETQSDQDDTDLGDEEEDDDEDSEEEDPSRSSPEE
                     VVATMGSIISLFLQMEDLEEQQRVVERIMVQALNEDRLPRLRPFSGDRRDYNEFIMLC
                     QITMQNYPVMVNNDQLKVRFVIHHLSDVALEWANDLLEQNSHLINDFPAFLEAMSEKF
                     EYRHTLRVAEDAMLDIRQRNRCAADYINEFLGLIPTLGWQDEVLQAHLCLGLNEDIRR
                     YLFRIPQPDSLRSLIILVLQIEERLAERRALLRLPPESRPRSLAWMDSPAPDKWRVSS
                     WPPNEFHPDIDRHHFFLMLLVRVNPYHSIAVKALVDTGVEGNYMDEKFAQEHYVELYE
                     KTHRQIIQGVDGSVIGNQLVWLCTDSLACVHQKHYEWIEFDILPSTNFSIILGIKWLQ
                     THEPEVDWCRGRCTFHSPYCLKNCSNPPPPCIALENYSMSLLPGLPHTYSDLADVFNP
                     READDETSDQPSSDGSDDLSESEPSELQQAGDSDQNGVFHRRRAKETLKPVSARMQEK
                     ARQQEEYWILYDMLTDRQDYIQMVPELFDQLHAASWFTKLEVLEVDKAEMKNSVAHTE
                     DTWRASFGFSDQQMRCYRPYTMSSFSDESNNIVHVILKDILGYFVICHGREVLVYSMS
                     KEEHPLHVRQVLLRFRYHNIYCSLDKTQFHRQKAEILGFSISPKGVKLSKKLTDIMVE
                     CPVPETRRCLQGVIELFYPYRHFVEHFSVMAEPLVKQLLSSEPYYWGEEEQEAFDSLK
                     RAFSRAPVLYHPKPQNPFYLETGTVGSFLYASLIQTDDATGRKATCAFYSRPLSLMEV
                     EYPQVEMRILPIRAAFMVWFRYLENTEEPIMILLNTEDLASLNNDRLTVLLPGHWVFF
                     FSHFNFSVMEMPDQDDTQALFRSCWNQRGFRARFLRPLLLMAMRAGYMDSSSDSEDED
                     EDQDDDDEEDSEEDSEQIELNRQTMMRDLLATIPMDRILNGFLVRFTVAQIRAVVLNF
                     FRGLIYWRTVLGVSALLVMSRARRPLSPLPEPSLEVARPQPRPTLRLILDPTLIASSG
                     MATAIAQLLRQMPPLVGANALPARELAELVLSPRCWHRNALHSQPPRGMRFTPGFWLT
                     LCEFFGVRVNPEEDIFPDPYQHRYLELHVVGDEDVVLREALQDDLQRYRQCGLHDGLQ
                     DTSQDAQDNDVQEDPLGDQEAVTFRPRNLLDPEVLDFLNNRLLYTLGSDGRLTLLSRD
                     QVARTLTRFLTMASRMALPSLAREQARLEELSDSDEELD"
ORIGIN      
        1 ttttcgctct gattctaatc atgtgggcat ctgctttgtc cttgagaatc tgaacctaac
       61 atctctagat cctaaatggc tgcttttcct cctgctcttt tatccctctg tccataggtt
      121 ctggtgtcca cagtcgcggt ctctgaccac acacatcccg atcttaccag tcttcagagc
      181 acactccctt ccaaccgacg acatgataga accctctgaa gactcatttg agacgatgat
      241 ggagcttaag aatccatcat caaaacaaat ggagtcctcc gagggctcat ccaacaccgt
      301 tgaagaggca cctggcaaca gtggggtgca ggcggaagag ggctcagaaa gtggcctggc
      361 ccaggaaaaa atggagccac ccagtggccc actcgaggaa atgcaagagc tgcccactga
      421 tctaacccaa gaaccatcca ctcgaccata tgaagaggga acgaacgacc aacccgaaga
      481 catggaggag acaagtgatg attcaaacca ggagtcgagt gatggttcaa accacgagtt
      541 tgacaatggt tcaaaccatg agtcgagctg tggttcaaac caagagtcaa tcgacgtttc
      601 aaacctggag tcaagcgacg tttctaacca ggagtctagc tatggattac accaggaggc
      661 aagctatagc tcaaaccagg aggcaagcta tagctcaaac caggaggcaa gctatagctc
      721 aaaccaggag gcaagctata gctcaaacca ggaggcaagt tatagttcaa accaggaggc
      781 aagctatagt tcaaaccagg aggcaagtta tagttcaaac caggaggcaa gctatagttc
      841 aaaccaggag gcaagctata gttcaaacca ggagacaagt gataattcaa accaggagtc
      901 tagttatggt gcaaaccagg aggcaagcta tagttcaaac caggagtcta gttatggtgc
      961 aaaccaggag tctagcgatg gttcaaacca gaattcaatt gatgattcaa accgggagtc
     1021 cagctatgga tcgaaccagg aggagtcaga tccactcagt gacgtatccg attatagcat
     1081 gaatgaaaca atgacctcat ctgagaccca gtcagatcaa gatgatactg acctgggaga
     1141 tgaagaggag gatgatgatg aagattctga agaggaagat ccgtccagga gctctccgga
     1201 agaagtcgtg gccacgatgg ggtccatcat ctcgctgttc ctccaaatgg aagacctcga
     1261 agaacaacag agagtggtag aaaggatcat ggtgcaagcc ctcaatgaag accgcctgcc
     1321 ccgcctcagg cccttctctg gagatcgcag agactacaat gagttcatta tgctctgcca
     1381 gataaccatg cagaactacc cagtaatggt aaacaatgat cagctgaagg tgagatttgt
     1441 catccaccac ctttctgacg tagccttaga atgggccaac gacctactag aacagaacag
     1501 ccacctgatc aacgacttcc cagccttcct cgaggccatg tcagaaaagt ttgagtaccg
     1561 gcatacactg cgtgtggcgg aagatgccat gttggacatc agacagcgca accgctgtgc
     1621 cgccgactac atcaatgagt tcctcggtct gatacctacc ttaggctggc aagatgaagt
     1681 cctgcaggcc cacctgtgcc tggggctcaa tgaagacatc aggcgctatc tgtttcggat
     1741 ccctcagcca gattccctga gaagcctgat tattcttgtt ctgcaaattg aagagaggtt
     1801 ggcagagaga agggcattac tcaggctgcc ccccgagtcc cgcccaagaa gcctggcttg
     1861 gatggactca cctgccccag acaagtggag ggttagcagc tggcctccca atgagttcca
     1921 cccagacatt gaccgtcatc acttcttcct gatgctcttg gtgagagtga acccctacca
     1981 cagcattgca gtgaaggccc tggtggacac gggtgtagaa ggaaactaca tggatgagaa
     2041 gtttgcccag gaacactatg tggaactcta tgagaaaact catcgacaga taatccaagg
     2101 tgtggatggc tctgtgattg gcaatcaact tgtctggctg tgtaccgact ccctggcgtg
     2161 tgtccaccag aagcactatg agtggattga atttgacatc ctaccttcga ccaacttctc
     2221 catcatctta ggcattaagt ggctccagac ccacgaacct gaagttgact ggtgcagagg
     2281 ccgttgtacc ttccactctc cctactgtct gaagaattgc tccaacccac ctccaccatg
     2341 catcgcactc gagaactaca gcatgagcct actacccgga ctgccacaca catactcaga
     2401 cctggccgac gtgttcaacc cgagggaggc agatgatgag acttccgacc agccaagctc
     2461 agacggatcc gatgatcttt ctgaatcaga gccctctgag cttcagcagg ctggagacag
     2521 tgatcaaaac ggcgtctttc acaggcgtag ggccaaagag actttgaaac ctgtgagtgc
     2581 caggatgcaa gaaaaagcca ggcagcaaga ggaatactgg atactgtatg acatgctgac
     2641 tgacagacaa gactacatac agatggtgcc agaattgttt gaccagttac atgcagcttc
     2701 atggttcaca aaactggagg ttctcgaggt cgacaaggct gagatgaaga acagcgtcgc
     2761 acacacagaa gacacatgga gagcatcgtt tggtttcagc gatcaacaga tgagatgcta
     2821 ccggccctat acaatgagct ccttctctga tgaatctaac aacattgttc acgtgatcct
     2881 aaaagacatc ctaggctatt ttgtgatctg ccatggcaga gaagttctgg tctactcaat
     2941 gagcaaggag gaacacccct tacatgtccg ccaagtcctg ctccgctttc gctatcacaa
     3001 catctactgc tcactggaca agactcagtt ccaccgccag aaggcagaaa tcttgggctt
     3061 cagcatatcc cccaaagggg tgaaactgag caagaagctc acggacatca tggtggagtg
     3121 ccctgtccct gagaccagaa gatgtcttca aggtgtgatt gagctcttct atccgtatcg
     3181 ccacttcgtg gagcactttt ctgtcatggc agagcccctg gtgaaacaac tgctgagttc
     3241 agagccctac tactggggag aagaggagca ggaggcattt gattccctga agagggcttt
     3301 cagcagggca cccgttctct accaccctaa acctcaaaac ccattctact tggaaacagg
     3361 caccgttggg tcattcctgt atgcctccct gattcaaacg gacgacgcaa ctggcagaaa
     3421 agctacctgt gctttctact caagacccct ctccctgatg gaggtggagt accctcaagt
     3481 ggagatgagg atccttccaa tccgggctgc cttcatggtg tggttccgct acctggagaa
     3541 caccgaggag cccatcatga tccttctcaa cacagaggat ctagcctctc tgaataatga
     3601 caggctcacc gtacttctcc ccgggcattg ggtcttcttc ttctcacatt tcaatttcag
     3661 cgtcatggag atgcccgatc aggatgacac ccaagccctg ttccgcagtt gctggaacca
     3721 gagaggcttc agagcaaggt ttctgcgccc actgctgctt atggcaatga gggcggggta
     3781 catggactca tcctctgatt cagaggatga ggatgaggac caggacgatg atgacgagga
     3841 ggacagtgaa gaagattcgg agcaaataga gctgaaccgg cagaccatga tgcgggatct
     3901 actggctacc atcccgatgg accggatcct caatggcttc ctggtccgct tcaccgtggc
     3961 ccagatccgg gccgttgtcc taaacttctt ccggggtctg atctactgga ggactgtcct
     4021 gggtgtgtca gccctcctgg tgatgtcgag agcgaggagg cccctctccc cactgcctga
     4081 accctctttg gaagtggcca ggcctcagcc caggcccacg ctccgactca tcctggaccc
     4141 gaccctcatc gcaagcagtg gcatggccac tgccatcgct cagttgctca ggcagatgcc
     4201 tcctctagtg ggtgccaatg ctctcccagc tcgagagctg gctgagctgg tcctgagccc
     4261 gaggtgctgg catcggaatg ctttgcattc ccaacctcca cggggcatgc gattcacccc
     4321 cgggttctgg ttgaccctgt gtgagttctt cggggtcaga gtcaaccctg aggaggacat
     4381 cttccctgac ccataccagc accgatactt ggagctgcac gtcgttggcg atgaagatgt
     4441 cgtcttgcga gaagccctgc aagacgacct gcaacgttac cgtcagtgtg gcctgcatga
     4501 cggcctgcaa gacacctcgc aggacgcgca ggacaacgac gtgcaagagg acccgcttgg
     4561 cgaccaagag gcggtcacct tccgcccacg aaatctgttg gacccagagg tcctagattt
     4621 cctcaacaac cggctactct acacccttgg ctccgatggc cgccttactc tgcttagcag
     4681 agatcaggtg gcccggaccc tcacacgatt cctgaccatg gcctccagaa tggccctgcc
     4741 ttcccttgcc agggagcagg caaggctaga agaactatcg gactcagatg aggaacttga
     4801 ctgaaaacac accaagtctc tgccatgctc ccttgtgcc
//
