LOCUS       NM_144809               3489 bp    mRNA    linear   ROD 25-FEB-2025
DEFINITION  Mus musculus PR domain containing 9 (Prdm9), transcript variant 1,
            mRNA.
ACCESSION   NM_144809 XM_484594
VERSION     NM_144809.3
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 3489)
  AUTHORS   Biot,M., Toth,A., Brun,C., Guichard,L., de Massy,B. and Grey,C.
  TITLE     Principles of chromosome organization for meiotic recombination
  JOURNAL   Mol Cell 84 (10), 1826-1841 (2024)
   PUBMED   38657614
REFERENCE   2  (bases 1 to 3489)
  AUTHORS   AbuAlia,K.F.N., Damm,E., Ullrich,K.K., Mukaj,A., Parvanov,E.,
            Forejt,J. and Odenthal-Hesse,L.
  TITLE     Natural variation in the zinc-finger-encoding exon of Prdm9 affects
            hybrid sterility phenotypes in mice
  JOURNAL   Genetics 226 (3) (2024)
   PUBMED   38217871
  REMARK    GeneRIF: Natural variation in the zinc-finger-encoding exon of
            Prdm9 affects hybrid sterility phenotypes in mice.
REFERENCE   3  (bases 1 to 3489)
  AUTHORS   Cincotta,S.A., Richardson,N., Foecke,M.H. and Laird,D.J.
  TITLE     Differential susceptibility of male and female germ cells to
            glucocorticoid-mediated signaling
  JOURNAL   Elife 12, 90164 (2024)
   PUBMED   38226689
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3489)
  AUTHORS   Giannattasio,T., Testa,E., Palombo,R., Chellini,L.,
            Franceschini,F., Crevenna,A., Petkov,P.M., Paronetto,M.P. and
            Barchi,M.
  TITLE     The RNA-binding protein FUS/TLS interacts with SPO11 and PRDM9 and
            localize at meiotic recombination hotspots
  JOURNAL   Cell Mol Life Sci 80 (4), 107 (2023)
   PUBMED   36967403
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 3489)
  AUTHORS   Valiskova,B., Gregorova,S., Lustyk,D., Simecek,P., Jansa,P. and
            Forejt,J.
  TITLE     Genic and chromosomal components of Prdm9-driven hybrid male
            sterility in mice (Mus musculus)
  JOURNAL   Genetics 222 (1) (2022)
   PUBMED   35924978
  REMARK    GeneRIF: Genic and chromosomal components of Prdm9-driven hybrid
            male sterility in mice (Mus musculus).
REFERENCE   6  (bases 1 to 3489)
  AUTHORS   Mihola,O., Trachtulec,Z., Vlcek,C., Schimenti,J.C. and Forejt,J.
  TITLE     A mouse speciation gene encodes a meiotic histone H3
            methyltransferase
  JOURNAL   Science 323 (5912), 373-375 (2009)
   PUBMED   19074312
  REMARK    GeneRIF: study identifies mammalian speciation gene, hybrid
            sterility 1 (Hst1) as Prdm9, encoding a histone H3 lysine 4
            trimethyltransferase
REFERENCE   7  (bases 1 to 3489)
  AUTHORS   Trachtulec,Z., Vlcek,C., Mihola,O., Gregorova,S., Fotopulosova,V.
            and Forejt,J.
  TITLE     Fine haplotype structure of a chromosome 17 region in the
            laboratory and wild mouse
  JOURNAL   Genetics 178 (3), 1777-1784 (2008)
   PUBMED   18245833
REFERENCE   8  (bases 1 to 3489)
  AUTHORS   Kinameri,E., Inoue,T., Aruga,J., Imayoshi,I., Kageyama,R.,
            Shimogori,T. and Moore,A.W.
  TITLE     Prdm proto-oncogene transcription factor family expression and
            interaction with the Notch-Hes pathway in mouse neurogenesis
  JOURNAL   PLoS One 3 (12), e3859 (2008)
   PUBMED   19050759
REFERENCE   9  (bases 1 to 3489)
  AUTHORS   Hayashi,K., Yoshida,K. and Matsui,Y.
  TITLE     A histone H3 methyltransferase controls epigenetic events required
            for meiotic prophase
  JOURNAL   Nature 438 (7066), 374-378 (2005)
   PUBMED   16292313
  REMARK    GeneRIF: Mice in which the Meisetz gene is disrupted show sterility
            in both sexes due to severe impairment of the double-stranded break
            repair pathway, deficient pairing of homologous chromosomes and
            impaired sex body formation
REFERENCE   10 (bases 1 to 3489)
  AUTHORS   Shiroishi,T., Sagai,T. and Moriwaki,K.
  TITLE     A new wild-derived H-2 haplotype enhancing K-IA recombination
  JOURNAL   Nature 300 (5890), 370-372 (1982)
   PUBMED   6815537
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CT033750.18, HQ704391.1, AC154378.2 and BX518160.1.
            
            On Aug 28, 2018 this sequence version replaced NM_144809.2.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: HQ704391.1, SRR17253011.916004.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            CDS uses downstream in-frame AUG :: upstream AUG and CDS extension
                                                is not conserved
            RefSeq Select criteria           :: based on conservation,
                                                expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-30                CT033750.18        89234-89263         c
            31-2574             HQ704391.1         1-2544
            2575-2983           AC154378.2         223518-223926       c
            2984-3489           BX518160.1         7-512
FEATURES             Location/Qualifiers
     source          1..3489
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 8.95 cM"
     gene            1..3489
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /note="PR domain containing 9"
                     /db_xref="GeneID:213389"
                     /db_xref="MGI:MGI:2384854"
     exon            1..111
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     CDS             43..2574
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /EC_number="2.1.1.354"
                     /EC_number="2.1.1.355"
                     /EC_number="2.1.1.361"
                     /EC_number="2.1.1.362"
                     /EC_number="2.1.1.359"
                     /note="isoform 1 is encoded by transcript variant 1;
                     histone-lysine N-methyltransferase PRDM9; hybrid sterility
                     protein 1; PR domain-containing protein 9; PR domain zinc
                     finger protein 9; meiosis-induced factor containing a
                     PR/SET domain and zinc-finger motif; VPR domain containing
                     9; histone H3 lysine-4 methyltransferase; protein-lysine
                     N-methyltransferase PRDM9; [histone H4]-lysine20
                     N-methyltransferase PRDM9; [histone H3]-lysine4
                     N-trimethyltransferase PRDM9; [histone H3]-lysine9
                     N-trimethyltransferase PRDM9; [histone H3]-lysine36
                     N-trimethyltransferase PRDM9; [histone
                     H4]-N-methyl-L-lysine20 N-methyltransferase PRDM9"
                     /codon_start=1
                     /product="histone-lysine N-methyltransferase PRDM9 isoform
                     1"
                     /protein_id="NP_659058.3"
                     /db_xref="CCDS:CCDS49963.2"
                     /db_xref="GeneID:213389"
                     /db_xref="MGI:MGI:2384854"
                     /translation="MNTNKLEENSPEEDTGKFEWKPKVKDEFKDISIYFSKEEWAEMG
                     EWEKIRYRNVKRNYKMLISIGLRAPRPAFMCYQRQAMKPQINDSEDSDEEWTPKQQVS
                     PPWVPFRVKHSKQQKESSRMPFSGESNVKEGSGIENLLNTSGSEHVQKPVSSLEEGNT
                     SGQHSGKKLKLRKKNVEVKMYRLRERKGLAYEEVSEPQDDDYLYCEKCQNFFIDSCPN
                     HGPPLFVKDSMVDRGHPNHSVLSLPPGLRISPSGIPEAGLGVWNEASDLPVGLHFGPY
                     EGQITEDEEAANSGYSWLITKGRNCYEYVDGQDESQANWMRYVNCARDDEEQNLVAFQ
                     YHRKIFYRTCRVIRPGCELLVWYGDEYGQELGIKWGSKMKKGFTAGRELRTEIHPCLL
                     CSLAFSSQKFLTQHMEWNHRTEIFPGTSARINPKPGDPCSDQLQEQHVDSQNKNDKAS
                     NEVKRKSKPRQRISTTFPSTLKEQMRSEESKRTVEELRTGQTTNTEDTVKSFIASEIS
                     SIERQCGQYFSDKSNVNEHQKTHTGEKPYVCRECGRGFTQNSHLIQHQRTHTGEKPYV
                     CRECGRGFTQKSDLIKHQRTHTGEKPYVCRECGRGFTQKSDLIKHQRTHTGEKPYVCR
                     ECGRGFTQKSVLIKHQRTHTGEKPYVCRECGRGFTQKSVLIKHQRTHTGEKPYVCREC
                     GRGFTAKSVLIQHQRTHTGEKPYVCRECGRGFTAKSNLIQHQRTHTGEKPYVCRECGR
                     GFTAKSVLIQHQRTHTGEKPYVCRECGRGFTAKSVLIQHQRTHTGEKPYVCRECGRGF
                     TQKSNLIKHQRTHTGEKPYVCRECGWGFTQKSDLIQHQRTHTREK"
     exon            112..235
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     exon            236..343
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     exon            344..393
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     exon            394..550
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     exon            551..652
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     exon            653..924
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     exon            925..992
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     exon            993..1186
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     exon            1187..3475
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3448..3453
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /note="hexamer: AATAAA"
     polyA_site      3475
                     /gene="Prdm9"
                     /gene_synonym="Dsbc1; G1-419-29; Meisetz; PRDM9-B; Rcr1;
                     repro7"
                     /note="major polyA site"
ORIGIN      
        1 gaccatagga ccctggacct ctccagtgaa atgtcctgca ccatgaacac caacaagctg
       61 gaagaaaata gtcctgaaga agatacaggg aaattcgagt ggaaacccaa ggtcaaagat
      121 gaattcaaag acatttccat atacttctcc aaagaagaat gggcagagat gggagagtgg
      181 gagaaaattc gctatagaaa tgtgaaaagg aactataaaa tgctgatttc aataggtctc
      241 agagccccta gaccagcttt catgtgttac caaaggcaag caatgaaacc ccaaataaat
      301 gacagtgagg attctgatga agagtggaca cctaagcaac aagtcagtcc tccttgggtg
      361 cctttccggg tgaagcacag taaacagcag aaggaatcat ctagaatgcc atttagtggt
      421 gaatctaatg tgaaggaagg gtctggaata gaaaatttgc tgaatacaag tggctcagaa
      481 cacgtccaga aaccagtgtc ctcccttgaa gaaggaaata cctctggaca gcactctggg
      541 aaaaaactga aacttaggaa aaagaacgtt gaagtgaaaa tgtacaggct gcgagagaga
      601 aagggccttg cctatgagga ggtcagcgag cctcaggatg atgactatct ctattgtgag
      661 aagtgccaga atttcttcat cgacagttgt cccaaccatg ggcctccttt atttgtaaaa
      721 gacagtatgg tggacagggg gcatcccaac cactcagtcc tcagtctgcc ccctgggcta
      781 agaattagtc catcgggcat ccctgaagct ggacttggag tatggaatga agcatctgat
      841 ctaccagtcg gtctgcactt tggcccctat gagggtcaga tcacagagga tgaagaggca
      901 gccaacagtg gttactcctg gctgattacc aagggaagaa actgctatga gtatgtggat
      961 ggacaggacg agtcccaagc caactggatg aggtatgtga actgtgcccg ggatgatgaa
     1021 gagcagaacc tggtagcctt tcaatatcac aggaaaatct tctatcgaac ctgccgggtt
     1081 atcagaccag gttgtgagct tctggtctgg tatggggatg agtacggcca ggaactgggc
     1141 attaagtggg gaagcaagat gaagaaagga ttcacagcag gaagagaact aaggacagaa
     1201 attcatcctt gtcttttgtg ctctttggcc ttctcaagtc agaaattcct cactcaacat
     1261 atggaatgga atcatcgcac tgaaatcttc ccaggaacat ctgcaagaat aaatcctaaa
     1321 ccaggagatc cctgttcaga tcagcttcag gaacaacatg ttgattcaca gaacaaaaat
     1381 gacaaggcca gcaatgaagt aaaaagaaaa tccaaaccca ggcagaggat ttcaacaacc
     1441 tttcccagca cactcaaaga acaaatgaga tctgaggaaa gtaagagaac tgtggaagag
     1501 ctcagaacag gccagacaac aaatacagag gacacagtca aatcatttat tgcatcagaa
     1561 atctcaagta ttgaaagaca atgtgggcaa tatttcagtg ataagtcaaa tgtcaatgag
     1621 caccagaaga cacacacagg ggagaagccc tatgtttgca gggagtgtgg gcggggcttt
     1681 acacagaact cacacctcat ccagcaccag aggacacaca caggggagaa gccctatgtt
     1741 tgcagggagt gtgggcgggg ctttacacag aagtcagacc tcatcaagca ccagaggaca
     1801 cacacagggg agaagcccta tgtttgcagg gagtgtgggc ggggctttac acagaagtca
     1861 gacctcatca agcaccagag gacacacaca ggggagaagc cctatgtttg cagggagtgt
     1921 gggcggggct ttacacagaa gtcagtcctc atcaagcacc agaggacaca cacaggggag
     1981 aagccctatg tttgcaggga gtgtgggcgg ggctttacac agaagtcagt cctcatcaag
     2041 caccagagga cacacacagg ggagaagccc tatgtttgca gggagtgtgg gcggggcttt
     2101 acagcgaagt cagtcctcat ccagcaccag aggacacaca caggggagaa gccctatgtt
     2161 tgcagggagt gtgggcgggg ctttacagcg aagtcaaacc tcatccagca ccagaggaca
     2221 cacacagggg agaagcccta tgtttgcagg gagtgtgggc ggggctttac agcgaagtca
     2281 gtcctcatcc agcaccagag gacacacaca ggggagaagc cctatgtttg cagggagtgt
     2341 gggcggggct ttacagcgaa gtcagtcctc atccagcacc agaggacaca cacaggggag
     2401 aagccctatg tttgcaggga gtgtgggcgg ggctttacac agaagtcaaa cctcatcaag
     2461 caccagagga cacacacagg ggagaagccc tatgtttgca gggagtgtgg gtggggcttt
     2521 acacagaagt cagacctcat ccagcaccag aggacacata caagagagaa gtaatatatt
     2581 ttcgaaaaga atgagaaagc caacagcaat aaaaccacat ctcaacaatt acaggaagac
     2641 aaatgtagtc actaaacatc tgttctgcta aaacttctaa ggagtctact gatttttaaa
     2701 actagaatat aaaatgacta gaaaagggaa ttaaatcccc ttctttttct tttctttttc
     2761 ggtttttaaa gacagatttc tctgtgcagt ctggttgtcc tagaactgtt tctgtagacc
     2821 aggttggcct caaaatcaga gttgctagct tctgcctccc caatactagg agtaaagccc
     2881 cattgcaaat tctcattttc tttcttttct ttcttttctt tctttttttt tttttttttt
     2941 tttggttttt cgagacaggg tttctctgta tagccctggc tgtcctggaa ctcacgctat
     3001 agaccaggct ggcctcgaac tctgaaatct gcctgcctct gcctcccgag tgctgggatt
     3061 aaaggcacct ggctacaaat tctcattttc aagtgagata agttagaaag aaaaacaaac
     3121 gaacaacccc tcctcaaaaa caaaacaaac aaaaacaaac tgttaggagc gaccctgttt
     3181 gaatgttagc tgccttgtca gccataagtg cttacttaca aagtcttggc cttagtggaa
     3241 aagtattagc ttagttgaga tttctgtggg aaaaagttga ggcctctgtg ggaaagtact
     3301 acatagagtt ctgttcctcc tgctgaactt tttacctagc caatatcctg ctttggggaa
     3361 catgtacgtt cccccagaaa caaagcgatt ctgcgtcatc cccctaccca tactctgctt
     3421 ctgtgggcat aaaacctgcc tgggaataat aaaaatgtga cagcttgatc agtcaaaaaa
     3481 aaaaaaaaa
//
