LOCUS       NM_199468               2866 bp    mRNA    linear   ROD 01-MAY-2024
DEFINITION  Mus musculus retrotransposon Gag like 3 (Rtl3), mRNA.
ACCESSION   NM_199468 XM_142038
VERSION     NM_199468.2
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 2866)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 2866)
  AUTHORS   Ye,Q., Bhojwani,A. and Hu,J.K.
  TITLE     Understanding the development of oral epithelial organs through
            single cell transcriptomic analysis
  JOURNAL   Development 149 (16) (2022)
   PUBMED   35831953
REFERENCE   3  (bases 1 to 2866)
  AUTHORS   Brandt,J., Schrauth,S., Veith,A.M., Froschauer,A., Haneke,T.,
            Schultheis,C., Gessler,M., Leimeister,C. and Volff,J.N.
  TITLE     Transposable elements as a source of genetic innovation: expression
            and evolution of a family of retrotransposon-derived neogenes in
            mammals
  JOURNAL   Gene 345 (1), 101-111 (2005)
   PUBMED   15716091
REFERENCE   4  (bases 1 to 2866)
  AUTHORS   Brandt,J., Veith,A.M. and Volff,J.N.
  TITLE     A family of neofunctionalized Ty3/gypsy retrotransposon genes in
            mammalian genomes
  JOURNAL   Cytogenet Genome Res 110 (1-4), 307-317 (2005)
   PUBMED   16093683
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC064821.1.
            
            On Jul 26, 2018 this sequence version replaced NM_199468.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC064821.1, AK084983.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164138, SAMN01164141
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-2866              BC064821.1         105-2970
FEATURES             Location/Qualifiers
     source          1..2866
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10090"
                     /chromosome="X"
                     /map="X 47.37 cM"
     gene            1..2866
                     /gene="Rtl3"
                     /gene_synonym="D430021I08Rik; Gm375; Mar3; Mart3; Zcchc5;
                     ZHC5"
                     /note="retrotransposon Gag like 3"
                     /db_xref="GeneID:213436"
                     /db_xref="MGI:MGI:2685221"
     exon            1..62
                     /gene="Rtl3"
                     /gene_synonym="D430021I08Rik; Gm375; Mar3; Mart3; Zcchc5;
                     ZHC5"
                     /inference="alignment:Splign:2.1.0"
     exon            63..2843
                     /gene="Rtl3"
                     /gene_synonym="D430021I08Rik; Gm375; Mar3; Mart3; Zcchc5;
                     ZHC5"
                     /inference="alignment:Splign:2.1.0"
     CDS             271..1932
                     /gene="Rtl3"
                     /gene_synonym="D430021I08Rik; Gm375; Mar3; Mart3; Zcchc5;
                     ZHC5"
                     /note="zinc finger CCHC domain-containing protein 5"
                     /codon_start=1
                     /product="retrotransposon Gag-like protein 3"
                     /protein_id="NP_955762.1"
                     /db_xref="CCDS:CCDS30344.1"
                     /db_xref="GeneID:213436"
                     /db_xref="MGI:MGI:2685221"
                     /translation="MVEDLAASYVTLKLENEILQAQVKRLMEENAALQAQIPELQKSG
                     AVKEHEPLRKPSEAQEPPESPEFPAARESQNPWEPPATTEPGEPTKIREPREPSAISE
                     LREPPEIKEPQEPPETNESGESSAITEFRGSPEIKEPHLPPKSKEYWGPQELPMVKES
                     WEPPEALDSTAWKPPAVKESQEIQKALESPATQRPQASPRGYDLPAVCEAEPTDNQGT
                     PALKELQSPQLHNPTNDEESQTVPEYQETSSQLEPLEHPPPQETLEPRVPQEPLDPSD
                     AEEFLELSVPEESLEGLIVARTGTEQAQCELEATTLPLEYPLAFSEDFQKLSEFLVQL
                     TSYLRSRGYPTEAALVSFVGSFFSGEAGRMFQPLLDSQPPLVEQFERLLRALQDTFDN
                     PESLEVANQGLPQLRQGEGLAPRYSTRFHLIAQELDLGESTLCIQFQEELASSIQNEL
                     SCTSPATNLSDVIIECVTLEEKASGGVDSSSSSSEEENGSEGPPTENQPVQATSNRPH
                     LSEAERARRREGHLCLYCGHPGHFARDCPVKPHRVQQAGNMEARR"
     regulatory      2823..2828
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Rtl3"
                     /gene_synonym="D430021I08Rik; Gm375; Mar3; Mart3; Zcchc5;
                     ZHC5"
                     /note="hexamer: AATAAA"
     polyA_site      2843
                     /gene="Rtl3"
                     /gene_synonym="D430021I08Rik; Gm375; Mar3; Mart3; Zcchc5;
                     ZHC5"
                     /note="major polyA site"
ORIGIN      
        1 acacttctct cctcagcgat ggctatgcag acagcagagc tccagcccta catctctaaa
       61 tgtgtgtctc acacttcccg gtgctgagct ctaaggctcc cagtgacctc ttgataatca
      121 gccttggctg ggtccaaatc cccacccctt ggaaaagtca cggagcctga cgtctgtctg
      181 cctgtgagcc gctttcagca aagacctcac aagcagctac tcaatctctc ttggtagcaa
      241 gttgccaaac caggcccgtt tcctcaaaag atggtagagg acttagcagc ttcctatgtt
      301 actctgaaat tggagaatga aattctgcag gctcaagtga aaaggctcat ggaagaaaat
      361 gctgccctcc aggcccagat accagagctc cagaaatccg gagcagtcaa agagcatgaa
      421 ccactccgaa agccctcaga ggcccaagag cccccagagt ccccagagtt cccagcagcc
      481 agggagtcac agaacccctg ggaaccccca gcaaccacag agcccgggga gcccacaaag
      541 atcagagagc ccagggaacc ctcagccatc agtgagctca gggaaccccc agagatcaag
      601 gagccccagg agcccccaga gaccaatgag tctggagaat cctcagccat cacagagttc
      661 aggggatccc cagagatcaa ggagccccat ttgcccccaa agtccaagga gtactgggga
      721 cctcaggagc ttccaatggt caaggaatcc tgggagcccc cagaggccct ggattccaca
      781 gcctggaagc caccagcagt caaggaatcc caggagatcc agaaggctct ggagtcccca
      841 gcaacccaga ggccccaggc gtccccaagg ggttatgatc tcccagcagt ctgtgaggcg
      901 gagcccacag acaaccaggg taccccagcc ctcaaggagc ttcagagtcc acagctccac
      961 aaccctacaa atgatgagga gtctcagacg gttccagaat accaggagac ctcatcacag
     1021 ctggagcccc ttgagcatcc acctccccag gagactctgg agcctcgggt gccccaggag
     1081 cccctggacc cctcagatgc cgaggagttt ctagaactct cagtacctga agagtcccta
     1141 gagggcctga tagttgcgag aacaggaaca gaacaggccc agtgtgaatt agaggctaca
     1201 actttgcccc tagagtaccc tttggccttc agtgaggatt ttcagaaact ctctgagttt
     1261 ttagttcagt tgaccagtta cctgagaagc agagggtatc ccactgaagc ggctctagtg
     1321 agctttgttg gcagcttctt ctcaggtgag gcgggaagga tgttccagcc cttattagat
     1381 agccaacccc ccctggtgga gcaatttgaa aggctcctgc gagcgctcca agatactttt
     1441 gacaatccag aaagcttgga agttgctaac cagggcctcc ctcaacttcg ccaaggggaa
     1501 ggccttgctc ccaggtactc aacccgcttc catctcattg cgcaagagtt agatttgggt
     1561 gaaagcacgc tctgcatcca atttcaagaa gagcttgcca gttctattca aaatgaactg
     1621 tcttgcacaa gtccagccac caacctatct gatgtgatca ttgagtgtgt caccctagaa
     1681 gagaaggcaa gtggcggggt tgattccagt tcatcatcgt ctgaagagga aaatgggtcc
     1741 gagggtcctc ccactgaaaa ccaacctgtt caagctacaa gtaatcgccc ccacctcagc
     1801 gaggctgaac gggcaagacg ccgcgaaggc cacttgtgcc tctactgtgg ccatccaggt
     1861 cattttgcca gagactgccc tgtcaagcct catcgtgtcc agcaggcggg aaacatggag
     1921 gcccggcggt aagggggatc ccgggcgggc caatctacaa atacgcgtcc ccctctcttc
     1981 ccatatctat gtcccgtacc ctgtggctaa ctgtcgagat taggcttgga agacggcaat
     2041 tctttgagca agcaatggtg gattcaggct cctacagaaa cagcatcgac cgctctgtgg
     2101 ttcttcgaga gaagatacca atccgcaata atatcttccc tcttatgctt gaaacggtcg
     2161 atgggcgtcc gctgattaat ggacccatta ccaaagaaac cccacctgtt gaagtaaaaa
     2221 ttggaaacca cgttgaagag ctccagtttg acattattca tgcaccacgc taccctctga
     2281 ttcttggaat ccattggctt gagacccatg acccaaacat cgaatggagt acccgaactg
     2341 tgtcatttcc atcgcattac tgtcattaca attgcttcag gcacaggtgg aatcgaagac
     2401 ggcgtgatga aataattgct ggttagatgg tgggtcctag tgacttctgg ccatctgtct
     2461 tctgttacct cagctgtcat cagcatttgc tgctctctga atctttcact gaacctctgg
     2521 ctatgaacga aggctacctg tacaacgacg ctgcctcttg gatgatggac tgaacctgac
     2581 gactttgagc tgcttttcct caccaacctt gcatgcctcc ctctttgagc cctgcattat
     2641 gtagggctgt ttttttttaa tcgcaattct cactaacgat atgcatgcga atagatatta
     2701 gaaactaata ctgaaaactg tagttgttag accgattttg ttactttcta gtcaaaatta
     2761 ccacatattt tctggttttt tttttcaata aaagcaattt tcaagtgtat ttttcagtaa
     2821 tcaataaaca atgggaagtg ttaaaaaaaa aaaaaaaaaa aaaaaa
//
