LOCUS       NM_001040434            4142 bp    mRNA    linear   ROD 29-JUL-2024
DEFINITION  Mus musculus retrotransposon Gag like 9 (Rtl9), mRNA.
ACCESSION   NM_001040434 XM_001472365 XM_001474906 XM_006528787
VERSION     NM_001040434.2
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 4142)
  AUTHORS   Ishino,F., Itoh,J., Irie,M., Matsuzawa,A., Naruse,M., Suzuki,T.,
            Hiraoka,Y. and Kaneko-Ishino,T.
  TITLE     Retrovirus-Derived RTL9 Plays an Important Role in Innate
            Antifungal Immunity in the Eutherian Brain
  JOURNAL   Int J Mol Sci 24 (19), 14884 (2023)
   PUBMED   37834332
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4142)
  AUTHORS   Youngson,N.A., Kocialkowski,S., Peel,N. and Ferguson-Smith,A.C.
  TITLE     A small family of sushi-class retrotransposon-derived genes in
            mammals and their relation to genomic imprinting
  JOURNAL   J Mol Evol 61 (4), 481-490 (2005)
   PUBMED   16155747
REFERENCE   3  (bases 1 to 4142)
  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 4142)
  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
            AL731548.13 and AK220382.1.
            
            On or before Mar 6, 2014 this sequence version replaced
            XM_006528787.1, NM_001040434.1.
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK220382.1, SRR6116558.69006.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849382, SAMN00849389
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-630               AL731548.13        162783-163412
            631-4142            AK220382.1         1-3512
FEATURES             Location/Qualifiers
     source          1..4142
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="X"
                     /map="X 64.02 cM"
     gene            1..4142
                     /gene="Rtl9"
                     /gene_synonym="Gm385; Mar9; Mart9; Rgag1"
                     /note="retrotransposon Gag like 9"
                     /db_xref="GeneID:209540"
                     /db_xref="MGI:MGI:2685231"
     CDS             1..4104
                     /gene="Rtl9"
                     /gene_synonym="Gm385; Mar9; Mart9; Rgag1"
                     /note="retrotransposon gag domain-containing protein 1;
                     sushi-XF2; retrotransposon gag domain containing 1"
                     /codon_start=1
                     /product="retrotransposon Gag-like protein 9"
                     /protein_id="NP_001035524.2"
                     /db_xref="CCDS:CCDS72442.1"
                     /db_xref="GeneID:209540"
                     /db_xref="MGI:MGI:2685231"
                     /translation="MADMSIPLHSLRFNNMMKEENGDPQNRGATFSRPMTETRAEVQI
                     LHSQLQLPVVSTSASDLEGTSTQLMTSPGFDSLSTPLMGAPHSGTLSPPLMSASDSGT
                     LSPLLMPASDSGTLSPLLMPVSDSGTLSPLLMPASDSGTLSPLLSTSDYGLMSPGMMS
                     IPDFGTMSSLMAAPDSAEISPLAMPIQSSGVISAPIMSTSSSEASLMLGSDPGEISPL
                     LIPDMNPGVTSTPPMTAPGSEAMSPLQITDEDTEAMSKVLMTALASGEISSLLMSGTD
                     SEAISSLIMSALASGETPAQPTNPPESEGIPTVLMSGSDSAVMSSLPMPVSGSGAMPT
                     PLLSIPDAGEIATLPKPVPDVEAMSPLLMTALTSTVMPSQLISASSSGVMSPDTTQNI
                     NSEVMSAPPIRVSSTGLMSTLPVRASDTAATPIQLMRVPASGNMSTSQKTVPVSGSMS
                     TPLMAVTSPGAIFTEQMPSTASGTMSTHLTMPQTPGTMPIGFMKSTSNGAVSAQQIRC
                     SVSGMMSTQPVIATASEIMSVSQSTVPTSGSVSTQKTRAPVSGPMSTTQIRTTASALT
                     STPQMRATASGTMSIPLMTAKTSGSASTLLMRDTASGVISVPQMRAPGSGTVSKPLMT
                     SKASGMFMQQMTTAAFGATPTSLMRDTASGGLSMPQMTDPASGGMSTLLTRATASGTK
                     STSQMTATTSGGIFMPQTRLSGPGATSTPLMRATASEKMPSQAMNIQDSGGVSTPLMR
                     PVALGGVQMRSQGSGTMSTPLLRASDSSEMSMLLTKAPSSGERPLLLVRPPASGEIAP
                     HSRTPVYGTISAPHMTTTASGVMTMSPMKTSVPVSESATLLRPTDSGVMSIPLTRTPA
                     SRAKSRPQMATACGDMCPLPVRAPATAGISPSPVRSPASSTLSTLLRRPSDGAVTAEL
                     ERVLGPAQFAAMTPGEMSKPLMRASAPGTTTMPLMSPMTSGEMSMPLMKTTPSGTMST
                     LQTKVMSSRATSLPQPRNAASGVIANPPQRAPASGAGSTPLMRVSGSGMMSTPLLGAT
                     ASGGMSMPQMAPPTSGDMFSPLMRSPAPGIMSTPQTAFGMTPTLNVKATDSGEASTSH
                     TRFTAPGSKSTPHMTSTAPEMKTPPPKEVPSFGMLTPALCYLLEEQEAARGSSSVEED
                     AEEIDEEKQMKGFLDDSEKMAFLVSLHLGAAERWSILQMEVGNPISSDNKAFLRRSQG
                     LYDSLSEIDILSAVLCHPKQGKKSVRQYATDFLLLARHLSWSDAILRTRFLEGLSEAV
                     TTKMGRIFLKVAGSLKELIDRSLYTECQLAEEKDSSGNSNQVVPTSCKRNNEEAMENE
                     LGSQQQTEEHQHVPKRCYYLKEHGDPQESLHDHLRQSAGLPKAPTNK"
     exon            1..3987
                     /gene="Rtl9"
                     /gene_synonym="Gm385; Mar9; Mart9; Rgag1"
                     /inference="alignment:Splign:2.1.0"
     exon            3988..4142
                     /gene="Rtl9"
                     /gene_synonym="Gm385; Mar9; Mart9; Rgag1"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 atggcagata tgtcaatacc attacattca ctacgcttca acaatatgat gaaggaggaa
       61 aatggtgacc ctcaaaacag aggggcaact ttctctagac caatgacaga gaccagagca
      121 gaagttcaaa tcctgcattc acagttgcag ttgcctgttg tttcgacttc agcctcagat
      181 ctcgaaggga catctacaca gctgatgaca tcgccaggct ttgacagtct gtccacacct
      241 ctcatgggag caccacactc tgggacgttg tccccaccac tgatgtcagc ctcagactct
      301 gggacactgt ccccactgct aatgccggcc tcagattcgg gaacactatc cccactccta
      361 atgccagttt cagactctgg aacactgtct ccactgctaa tgccagcctc agattcagga
      421 acactgtccc cactgttgtc tacttcagac tatgggttaa tgtccccagg gatgatgtca
      481 atacctgatt ttgggacaat gtcatcacta atggcagccc cagattctgc agagatatca
      541 ccattggcaa tgccaattca gtcctctgga gtgatatctg cacctataat gagcacttca
      601 tcctccgagg catcgttaat gctaggatca gatcctggtg agatatcccc actcctgatt
      661 ccagatatga accctggagt gacatccaca ccaccaatga cagctccagg ctcagaagca
      721 atgtccccac tgcaaattac agatgaggac acagaagcaa tgtccaaagt gctaatgacg
      781 gctctagctt ctggagagat atcatcactg ctaatgtcag gcacagactc tgaagcgata
      841 tcttctctga tcatgtcagc tctagcttct ggggaaacac cagcccagcc aacaaatcct
      901 ccagagtctg aagggatacc cactgtgctc atgtcaggct cagactctgc agtcatgtct
      961 tcactgccta tgccagtttc tggctctgga gcaatgccta caccactcct gtcaatccca
     1021 gatgctggag aaatagccac attaccaaag ccagtcccag atgttgaggc aatgtcccca
     1081 ctgttaatga cagccctcac ctctacagtg atgcccagtc aactgatttc agcatctagt
     1141 tctggagtga tgtccccaga tacaacacaa aatatcaact ctgaggtcat gtctgctcca
     1201 ccaataagag tttcatccac tggattgatg tccacactac ctgtgagagc ttctgataca
     1261 gcggcaacac ccatacagct aatgagagtc cctgcctctg gaaatatgtc tacatcacaa
     1321 aagacagttc cagtctctgg atcaatgtcc actccactga tggctgtcac aagccctgga
     1381 gcaatattca cagaacaaat gccaagcaca gcctctggta caatgtctac acatttaaca
     1441 atgccccaaa cacctggaac aatgcccata ggttttatga agtccacatc aaatggagcc
     1501 gtttctgcac agcaaattag atgttcagtt tctgggatga tgtccacaca gccagttata
     1561 gctacagcct ctgaaataat gtctgtgtca caatcaacag tcccaacctc tgggtcagtg
     1621 tccacacaga aaacccgagc tcctgtctct ggaccaatgt ctacaaccca aataagaacc
     1681 acagcctcag cgttgacatc tacaccacaa atgagagcca cagcctccgg gacaatgtct
     1741 atcccactga tgacagccaa aacctctgga tcagcatcca cactgttaat gagagacaca
     1801 gcctcaggag tgatatccgt gccacagatg agagctccag gctctggaac agtgtccaag
     1861 ccactaatga catccaaagc ttctggaatg ttcatgcagc aaatgacaac tgcagctttt
     1921 ggagcaacgc ctacatcgct aatgagagac acagcttctg gaggtctgtc catgccacag
     1981 atgacagatc cagcctcagg aggcatgtcc acactgctaa caagagccac agcttctgga
     2041 acaaagtcta catcacagat gacagccacc acctctggag gcattttcat gcctcaaaca
     2101 agactctcag gtcctggagc aacatccaca ccactaatga gagccacagc ctctgagaag
     2161 atgcctagtc aggcaatgaa cattcaagac tctggaggag tgtccacacc gctcatgaga
     2221 cctgttgcct tgggaggggt gcaaatgaga tcccagggct ctggaacaat gtccacaccc
     2281 ctattgagag cctcggactc atcagagatg agtatgttgc tcacaaaagc cccatcctct
     2341 ggagagcggc ctctgctatt agtgagacct ccagcttcag gagagatagc tccacattcg
     2401 agaaccccag tttatgggac aatatctgct ccacacatga cgaccacagc ctcaggagtg
     2461 atgaccatgt cacctatgaa gacttctgtt cctgtatcag agtcggcaac tctcctgaga
     2521 cccacagatt caggagtgat gtccatacca ctgacgagaa caccagcttc tagagcaaag
     2581 tccagaccac aaatggccac agcttgtgga gacatgtgtc cactcccagt gcgagctcca
     2641 gccactgcag ggatctctcc atcaccagtc agatcaccag cctcttccac cttgtctaca
     2701 ctacttagga gaccctctga tggagctgtg actgcagagt tagagagagt tctaggccct
     2761 gcacaatttg cagctatgac cccgggagag atgtccaagc cactgatgag ggcttcagcc
     2821 cctggaacca caaccatgcc tttgatgtcc cccatgactt ctggagagat gtctatgcca
     2881 ctaatgaaaa ccacgccctc tgggacaatg tcaactctac aaaccaaagt catgagctct
     2941 agagctacat ccttaccaca gccaagaaat gcagcttctg gggtaatagc taacccccca
     3001 cagagagccc cagcctctgg agcagggtct acaccactta tgagagtctc aggttcagga
     3061 atgatgtcca cgccactatt gggggctaca gcttcaggag gaatgtccat gccacaaatg
     3121 gcacctccaa cctctggaga tatgttctca ccactaatga ggtccccggc acctggaata
     3181 atgtccacac cacaaacggc ctttggaatg acacccactc tgaacgtcaa agccacagat
     3241 tcgggagagg catctacctc tcacaccaga ttcacagccc ctggctcaaa gagcacacca
     3301 cacatgacca gcacagcccc tgaaatgaag acccccccac caaaggaagt gccgtccttt
     3361 ggtatgttga ccccagcact ctgttacctc ttagaagagc aagaagcagc ccggggctca
     3421 tcctctgtgg aggaagatgc agaggagatt gatgaggaga aacaaatgaa ggggttttta
     3481 gatgattctg agaaaatggc atttctggtg tctcttcatc tgggggcagc agagaggtgg
     3541 tccatcttgc aaatggaggt aggaaatccc atctccagtg ataataaagc tttcttgaga
     3601 agatcacagg gcttatatga ctccctatct gagatagaca tcctaagtgc tgttctttgc
     3661 catcccaagc agggcaaaaa gtcagtaagg cagtatgcca ctgacttcct gctgttggcc
     3721 cgacatttgt cttggtctga tgccattcta cggaccaggt ttctggaagg actctcagaa
     3781 gctgttacca ccaaaatggg ccgtatcttc ctgaaggtgg ccggcagcct aaaggagctg
     3841 atagataggt ctctgtatac tgagtgccag ctggctgaag agaaggattc ttcaggcaac
     3901 tcaaaccaag ttgtgccaac atcctgtaag cggaacaatg aggaggccat ggagaatgaa
     3961 ctgggctctc agcagcagac tgaggagcac cagcatgttc ccaaacgctg ttactacttg
     4021 aaagaacatg gagaccccca ggaaagtctt catgaccacc ttcgacagag tgcaggcctt
     4081 ccgaaggccc ctacaaacaa gtagtactcc ttggaatctt atgtgatttc tgacttggct
     4141 gc
//
