LOCUS       NM_001401115            1798 bp    mRNA    linear   ROD 01-APR-2024
DEFINITION  Rattus norvegicus cleavage and polyadenylation specific factor 4
            (Cpsf4), transcript variant 2, mRNA.
ACCESSION   NM_001401115 XM_006248869
VERSION     NM_001401115.1
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.
REFERENCE   1  (bases 1 to 1798)
  AUTHORS   Baltz,A.G., Munschauer,M., Schwanhausser,B., Vasile,A.,
            Murakawa,Y., Schueler,M., Youngs,N., Penfold-Brown,D., Drew,K.,
            Milek,M., Wyler,E., Bonneau,R., Selbach,M., Dieterich,C. and
            Landthaler,M.
  TITLE     The mRNA-bound proteome and its global occupancy profile on
            protein-coding transcripts
  JOURNAL   Mol Cell 46 (5), 674-690 (2012)
   PUBMED   22681889
REFERENCE   2  (bases 1 to 1798)
  AUTHORS   Laishram,R.S. and Anderson,R.A.
  TITLE     The poly A polymerase Star-PAP controls 3'-end cleavage by
            promoting CPSF interaction and specificity toward the pre-mRNA
  JOURNAL   EMBO J 29 (24), 4132-4145 (2010)
   PUBMED   21102410
REFERENCE   3  (bases 1 to 1798)
  AUTHORS   Nemeroff,M.E., Barabino,S.M., Li,Y., Keller,W. and Krug,R.M.
  TITLE     Influenza virus NS1 protein interacts with the cellular 30 kDa
            subunit of CPSF and inhibits 3'end formation of cellular pre-mRNAs
  JOURNAL   Mol Cell 1 (7), 991-1000 (1998)
   PUBMED   9651582
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000012.1.
            
            On Feb 2, 2022 this sequence version replaced XM_006248869.4.
            
            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.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26360176.850661.1,
                                           SRR26643295.44381.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760389,
                                           SAMEA5760476 [ECO:0006172]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-245               JAXUCZ010000012.1  14559106-14559350   c
            246-296             JAXUCZ010000012.1  14555522-14555572   c
            297-449             JAXUCZ010000012.1  14552940-14553092   c
            450-545             JAXUCZ010000012.1  14550693-14550788   c
            546-639             JAXUCZ010000012.1  14550083-14550176   c
            640-712             JAXUCZ010000012.1  14548913-14548985   c
            713-883             JAXUCZ010000012.1  14547309-14547479   c
            884-1798            JAXUCZ010000012.1  14543536-14544450   c
FEATURES             Location/Qualifiers
     source          1..1798
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="12"
                     /map="12p11"
     gene            1..1798
                     /gene="Cpsf4"
                     /note="cleavage and polyadenylation specific factor 4"
                     /db_xref="GeneID:304277"
                     /db_xref="RGD:620440"
     exon            1..245
                     /gene="Cpsf4"
                     /inference="alignment:Splign:2.1.0"
     CDS             143..952
                     /gene="Cpsf4"
                     /note="isoform 2 is encoded by transcript variant 2;
                     cleavage and polyadenylation specificity factor subunit 4;
                     cleavage and polyadenylation specific factor 4, 30kD
                     subunit; CPSF 30 kDa subunit; cleavage and polyadenylation
                     specificity factor 30 kDa subunit"
                     /codon_start=1
                     /product="cleavage and polyadenylation specificity factor
                     subunit 4 isoform 2"
                     /protein_id="NP_001388044.1"
                     /db_xref="GeneID:304277"
                     /db_xref="RGD:620440"
                     /translation="MQEIIASVDHIKFDLEIAVEQQLGAQPLPFPGMDKSGAAVCEFF
                     LKAACGKGGMCPFRHISGEKTVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSKF
                     GECSNKECPFLHIDPESKIKDCPWYDRGFCKHGPLCRHRHTRRVICVNYLVGFCPEGP
                     SCKFMHPRFELPMGTTEQPPLPQQTQPPTKQSNNPPLQRSSSLIQLTSQNSSPNQQRA
                     PQVIGVMQSQNSSAGNRGPRPLEQVTCYKCGEKGHYANRCTKGHLAFLSGQ"
     exon            246..296
                     /gene="Cpsf4"
                     /inference="alignment:Splign:2.1.0"
     exon            297..449
                     /gene="Cpsf4"
                     /inference="alignment:Splign:2.1.0"
     exon            450..545
                     /gene="Cpsf4"
                     /inference="alignment:Splign:2.1.0"
     exon            546..639
                     /gene="Cpsf4"
                     /inference="alignment:Splign:2.1.0"
     exon            640..712
                     /gene="Cpsf4"
                     /inference="alignment:Splign:2.1.0"
     exon            713..883
                     /gene="Cpsf4"
                     /inference="alignment:Splign:2.1.0"
     exon            884..1798
                     /gene="Cpsf4"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ggcattcctc gcggggaggc ggcggcggcg gcggcggcgg cggcggcggc aagcgagaag
       61 gggacaggga gaggtagtgt gaagcgcgga gagtggctga gagacctgag ggggagctgg
      121 gcccgaggcc gccgccgccg ccatgcagga aataatcgcc agcgtggatc acatcaagtt
      181 cgacttggaa atcgccgtgg agcagcagct cggggcgcag ccgctgccct tccccggcat
      241 ggataagtcg ggggctgctg tctgtgaatt ctttttgaaa gcggcctgtg gcaaaggggg
      301 catgtgccca ttccgccaca ttagtggcga gaagacagtt gtgtgcaaac actggctgag
      361 aggactgtgc aagaaagggg accagtgtga gttcttgcac gaatacgaca tgaccaagat
      421 gccagagtgc tacttttact ccaagttcgg ggagtgcagc aacaaggagt gccccttcct
      481 gcacatcgac cctgaatcca agataaagga ctgcccttgg tatgaccgtg gcttctgtaa
      541 gcatggtccc ctttgcaggc atcggcacac ccggagagtc atttgtgtga actaccttgt
      601 tggattctgc cctgagggac catcatgtaa attcatgcac cctcgatttg aactgcccat
      661 gggaaccact gaacaacccc cactaccaca gcagacacag cctccaacaa agcaaagtaa
      721 caatccgcca ttacaaaggt cgtcctcctt gatccagtta acgagtcaga actcttctcc
      781 caatcagcag agagccccgc aggtcattgg ggtcatgcag agtcaaaaca gcagtgcagg
      841 caaccgggga ccccggccgc tggagcaagt cacttgctac aagtgtggtg aaaaaggaca
      901 ctacgccaac agatgcacca aagggcactt ggcctttctc agtggacagt gacagcagca
      961 acagcagcag ctggcatcac tgtggagcag cctgagggcc cgctgttggg agcatgcact
     1021 tagctgctga atgtaggact ggcaggactc cggctggagc tgcaggcata cctgtcaggg
     1081 ctcactccga gggccatgtc tgtcctttgg ttttgctata attttttaaa agaaggacca
     1141 tgtgcttcag gtgggtcccc tgagccagag tttgcctgga catcagtgcc tcgtttttta
     1201 ttttatgagt tatttttctg gacttcctgc acagtgccct gttggggaga gagaagctgg
     1261 gaggcctatg cgtggtcctg ggtggaagac agctggccat tcccctcagg gcctcattga
     1321 aacaccagca cctaaagagg atgggtgggt catgtggggc tgtggccggg tcagcctgct
     1381 ttctccatgt cctgctgacg tctgaagctg tgcctatgaa tgtgatttga acaagggagc
     1441 ccttcctgac aaacgtggag caccctctgc ctggcctggc cctcactgtg ggagaggcgc
     1501 caggctcccc aggctgagct gcttttctgg gcttgcttgt ggggcaccta tgtgacagtg
     1561 cttcattcaa gtgccccttt ggccagtgct ggagaccacc tttaaatagc tgacccagtt
     1621 gatctgcgcc tacctcctgc ccagcaagct ccatgctgcc actcagacac ctgtggcatg
     1681 cagaggccgc ccatccttga gcctagaaaa tgtgaaccca tcacctgcaa cctgctgggc
     1741 aagtgggcct atccaagttc agttatgaga atactttgat taaaaagctt gtttttaa
//
