LOCUS       NM_177806               4096 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus pre-mRNA processing factor 39 (Prpf39), transcript
            variant 1, mRNA.
ACCESSION   NM_177806
VERSION     NM_177806.3
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 4096)
  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 4096)
  AUTHORS   De Bortoli,F., Neumann,A., Kotte,A., Timmermann,B., Schuler,T.,
            Wahl,M.C., Loll,B. and Heyd,F.
  TITLE     Increased versatility despite reduced molecular complexity:
            evolution, structure and function of metazoan splicing factor
            PRPF39
  JOURNAL   Nucleic Acids Res 47 (11), 5867-5879 (2019)
   PUBMED   30949712
  REMARK    GeneRIF: organisms with higher splicing complexity have substituted
            the Prp39/Prp42 heterodimer with a PRPF39 homodimer
REFERENCE   3  (bases 1 to 4096)
  AUTHORS   Zhou,J., Wang,R., Zhang,J., Zhu,L., Liu,W., Lu,S., Chen,P., Li,H.,
            Yin,B., Yuan,J., Qiang,B., Shu,P. and Peng,X.
  TITLE     Conserved expression of ultra-conserved noncoding RNA in mammalian
            nervous system
  JOURNAL   Biochim Biophys Acta Gene Regul Mech 1860 (12), 1159-1168 (2017)
   PUBMED   29055695
REFERENCE   4  (bases 1 to 4096)
  AUTHORS   Frankfort,B.J. and Gelman,I.H.
  TITLE     Identification of novel cellular genes transcriptionally suppressed
            by v-src
  JOURNAL   Biochem Biophys Res Commun 206 (3), 916-926 (1995)
   PUBMED   7832805
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BY069337.1, AK168462.1, AI790078.1 and BC076622.1.
            
            On Aug 28, 2007 this sequence version replaced NM_177806.2.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1660815.240514.1, AK168462.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849381, SAMN00849382
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-8                 BY069337.1         2-9
            9-691               AK168462.1         2-684
            692-1047            AK168462.1         686-1041
            1048-1215           AK168462.1         1043-1210
            1216-1222           AI790078.1         56-62
            1223-2840           AK168462.1         1219-2836
            2841-4096           BC076622.1         2525-3780
FEATURES             Location/Qualifiers
     source          1..4096
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="12"
                     /map="12 27.21 cM"
     gene            1..4096
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /note="pre-mRNA processing factor 39"
                     /db_xref="GeneID:328110"
                     /db_xref="MGI:MGI:104602"
     exon            1..135
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            136..482
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     CDS             165..2162
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /note="isoform 1 is encoded by transcript variant 1; PRP39
                     homolog; v-src suppressed transcript 1; PRP39 pre-mRNA
                     processing factor 39 homolog"
                     /codon_start=1
                     /product="pre-mRNA-processing factor 39 isoform 1"
                     /protein_id="NP_808474.2"
                     /db_xref="CCDS:CCDS25939.2"
                     /db_xref="GeneID:328110"
                     /db_xref="MGI:MGI:104602"
                     /translation="MQNSHMEEYRNSDNGSTGNSSEVAVVEHPDFSTEIMNVTEMEQS
                     PDASPSAHASTEENEMANAVNLPVTEAEGDFPPEFEKFWKTVEMNPQDFTGWVYLLQY
                     VEQENHLMAARKAFDKFFVHYPYCYGYWKKYADLEKRHDNIKQSDEVYRRGLQAIPLS
                     VDLWIHYINFLKETLDPGDQETNTTIRGTFEHAVLAAGTDFRSDKLWEMYINWENEQG
                     NLREVTAVYDRILGIPTQLYSHHFQRFKEHVQNNLPRDLLTGEQFIQLRRELASVNGH
                     SGDDGPPGDDLPSGIEDITDPAKLITEIENMRHRIIEIHQEMFNYNEHEVSKRWTFEE
                     GIKRPYFHVKPLEKAQLKNWKEYLEFEIENGTHERVVVLFERCVISCALYEEFWIKYA
                     KYMENHSIEGVRHVFSRACTVHLPKKPMAHMLWAAFEEQQGNINEARIILRTFEECVL
                     GLAMVRLRRVSLERRHGNMEEAEHLLQDAIKNAKSNNESSFYAIKLARHLFKIQKNLP
                     KSRKVLLEAIEKDKENTKLYLNLLEMEYSCDLKQNEENILNCFDKAIHGSLPIKMRIT
                     FSQRKVEFLEDFGSDVNKLLNAYDEHQTLLKEQDTLKRKAENGSEEPEEKKAHTEDLS
                     SAQIIDGDLQANQAAYNYSAWYQYNYQNPWNYGQYYPPPPT"
     exon            483..608
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            609..727
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            728..895
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            896..1061
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1062..1169
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1170..1334
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1335..1461
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1462..1730
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1731..1915
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1916..1990
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            1991..2105
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     exon            2106..4068
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2817..2822
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /note="hexamer: AATAAA"
     polyA_site      2842
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /note="major polyA site"
     regulatory      4048..4053
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /note="hexamer: AATAAA"
     polyA_site      4068
                     /gene="Prpf39"
                     /gene_synonym="Srcs1"
                     /note="major polyA site"
ORIGIN      
        1 gtgatcccga agaggcggcg gcggcgctgg tggtggtggc tgcggtagct gcgtggagcg
       61 aggcggtggc aggcccacct ttggcgatct tggcccaggc ttcggctcat ggcaccgagc
      121 agcatccata gtgagatcat taactgaaga ccaaataaat agctatgcaa aactcccaca
      181 tggaagagta caggaactct gataatggca gcacaggcaa cagttcagag gtagcagtag
      241 tagagcatcc agattttagt actgagatta tgaacgttac ggagatggag cagtcgcctg
      301 atgcctctcc cagcgcacat gcatctacag aagaaaatga aatggcaaat gctgtgaacc
      361 ttccagtgac agaagcagaa ggagacttcc ctccagagtt tgaaaaattt tggaaaacag
      421 tagaaatgaa tcctcaggat tttacaggct gggtatattt gcttcagtat gtagaacagg
      481 agaatcattt gatggctgcc aggaaagcat ttgacaaatt tttcgtacac tacccgtatt
      541 gctatggtta ctggaaaaag tatgcagacc ttgaaaagcg acatgacaac attaaacaat
      601 cagatgaggt ttatcgacgg gggcttcagg caatacctct tagtgttgat ctttggatac
      661 attatataaa cttcttgaaa gaaacattgg accctggtga tcaggagaca aacactacaa
      721 taagaggaac ttttgagcat gctgttctag ctgcaggaac agattttcga tctgacaaat
      781 tatgggaaat gtatataaac tgggagaatg aacagggaaa tctgcgagaa gttacagctg
      841 tatacgatcg tattcttggt attccaacac agctgtacag tcatcatttt cagagattta
      901 aagaacatgt acaaaataac ttgcctagag atcttttaac tggtgaacag tttattcagc
      961 tgagaaggga attagcttct gtaaatggac acagtggtga tgacggccct cctggtgatg
     1021 accttccatc aggaattgaa gacataactg atccagcaaa gctaattact gaaatagaaa
     1081 atatgagaca cagaatcatt gaaattcatc aagaaatgtt taattataat gagcatgaag
     1141 ttagtaagag gtggacattt gaagaaggta ttaaaagacc ttattttcat gtgaaaccat
     1201 tggaaaaggc tcagctaaaa aactggaaag aatacttaga attcgaaatt gaaaatggga
     1261 ctcatgaaag agttgtggtt ctctttgaaa gatgtgtcat atcttgtgcc ctctatgagg
     1321 agttttggat taagtatgcc aagtacatgg aaaaccatag cattgaagga gtgaggcatg
     1381 tcttcagcag agcttgtact gttcacctcc caaagaaacc catggcacac atgctttggg
     1441 cagcttttga ggaacaacag gggaatatta atgaagccag gattatcttg agaacgtttg
     1501 aagaatgtgt tctaggattg gcaatggttc gattgcgaag agtaagttta gaacgacggc
     1561 atggaaatat ggaagaagcc gaacatttgc ttcaggatgc tataaagaat gccaaatcaa
     1621 ataatgagtc atcattttat gctatcaaac tagcccgaca tcttttcaaa atacagaaaa
     1681 atcttccaaa atcaagaaag gtacttttgg aagcaatcga aaaagataag gagaacacaa
     1741 agttatacct caatttactt gaaatggaat acagttgtga cctcaagcaa aatgaagaaa
     1801 atatcctcaa ttgctttgac aaagccatac atggttcatt gcctattaaa atgagaatta
     1861 cattttctca aagaaaagtg gaattccttg aagattttgg ttcagatgtt aataagcttc
     1921 tgaatgcata tgatgaacac caaacacttc taaaagaaca ggatacttta aaaaggaaag
     1981 ctgaaaatgg ctcagaagaa ccagaagaaa agaaagcaca cacagaagat ttgtcatcag
     2041 cacagatcat tgatggggat ttacaggcaa atcaagctgc atataattac agtgcctggt
     2101 accagtacaa ttatcagaat ccttggaatt atggacagta ttatcctcca cctccaactt
     2161 gatgggaaaa tgtaaatttc agatggctta tatgatatgt ggaattattt ttttttgaag
     2221 gatgtaaaca tagtatatgc ttgttgtatt tgataatttg tcctcctagt ttctgtgtaa
     2281 catttgtcta gttaatagca ggaaatgtca attaatagtg tatcatagaa actttcctac
     2341 catttttaaa atttactttt tattggagaa ttattttttt tatttttatt ttatcttttt
     2401 tttttttttt ttttgcatta attggtctag aattcttttg cagctcatgc aggagatttg
     2461 tagccttaac tgtagggaga aaaaactgac tgtaaatcat gtcagttaaa agagatttgg
     2521 gggggggaga ataagggctg gttattgaga attttgcctc ctataaaaag attttaaaaa
     2581 atttactttt aaatcctaag gttgtctata tgttactggg gaatttggct ctaactccag
     2641 gagagatgaa ctgttgacat gctctgcctt tgaatagatt ataagcaaga aagtttaatg
     2701 tcagcatccc tttaagaaat caaatatcaa agtatgtttt aggagagttt gtatctagaa
     2761 tattcatgta aaacttatga gcaagctttc attttgatca gacttatcat ttttgtaata
     2821 aaaatggaga ctcatgcagc aattgttgat gaattcattt ggggaaggta cacaaaatag
     2881 agattaacat tgtcttgaag taaatttttc tctaaatcta ttatcttcct accagaatgt
     2941 tttaactgtt ttggttttgt ttcaagttcc tgtgcctttt aatttccacc atgaagtgtt
     3001 atatttttaa tgtccttgac aaagctagcc accttgatta gcagctcaac tcttgggaca
     3061 gagtcactag tttttaccta attagaatac agaacacaca ataaataagt cagtcaagac
     3121 aatccatgac acttttattg agtcttctag tttacaaggt aaaaggaaag cagctctctg
     3181 gaatacttta catagctgta ggaaaatatc tgagacttaa agggagtaac aggattatgt
     3241 ttctcaaaat gtgagatcaa gtaaacaagc tttaactcta aattttccag ttgactcttc
     3301 ccttacaagc tctaattagc cacagctcat ttttatgttt gctgatgtcc gatctgaagt
     3361 actggtttca gtcaatgtct actaattcca cttcaaaaat gagcttggtg tttggtggaa
     3421 ttctgtggga aaaggtcaag gaaaatttga aaagtgcata ataagagttg taaatcagat
     3481 tatgtgcgtg gtagagacac aattaaaagt tctaaggtaa gccagagatt atgccagtag
     3541 atttaagagg acagttttgt atttgactca gactagcttg agtttcttaa aagtatactt
     3601 gataatacct cactaatgct accaaattag ccagtatctt ttgaaggttg caactgcatt
     3661 caaaacctgt atgttggcag aacatgtcat ctactgtgaa ttataagaca agtttaggtg
     3721 tgcttggtgg tgcagtttta aatcccagca ctcagaaggc agaggcggac ctgaggacag
     3781 ctggtctgca caaactctaa gaaacaaaag gtgagaaggc tttatgattt cacatgagat
     3841 gaatttaaca ttttgaagac tacaaaggac gaccaatccc aaacctcact cctatcatct
     3901 acaaattaca gtatcaaaac taatttggca aacaagaatg gaatcacctt tccagttaac
     3961 tattagatca gtttagtaga atcatgcctt tctgcgtttt gtaaatgttg acaaactggg
     4021 ccctatcata caaatactgt aatccttaat aaatgcttac taacattaaa aaaaaaaaaa
     4081 aaaaaaaaaa aaaaaa
//
