LOCUS       NM_001106659            2596 bp    mRNA    linear   ROD 14-JAN-2025
DEFINITION  Rattus norvegicus pre-mRNA splicing tri-snRNP complex factor PRPF4
            (Prpf4), mRNA.
ACCESSION   NM_001106659 XM_001057634 XM_233022
VERSION     NM_001106659.1
KEYWORDS    RefSeq; RefSeq Select.
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 2596)
  AUTHORS   Bertram,K., Agafonov,D.E., Dybkov,O., Haselbach,D., Leelaram,M.N.,
            Will,C.L., Urlaub,H., Kastner,B., Luhrmann,R. and Stark,H.
  TITLE     Cryo-EM Structure of a Pre-catalytic Human Spliceosome Primed for
            Activation
  JOURNAL   Cell 170 (4), 701-713 (2017)
   PUBMED   28781166
REFERENCE   2  (bases 1 to 2596)
  AUTHORS   Linder,B., Hirmer,A., Gal,A., Ruther,K., Bolz,H.J., Winkler,C.,
            Laggerbauer,B. and Fischer,U.
  TITLE     Identification of a PRPF4 loss-of-function variant that abrogates
            U4/U6.U5 tri-snRNP integration and is associated with retinitis
            pigmentosa
  JOURNAL   PLoS One 9 (11), e111754 (2014)
   PUBMED   25383878
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2596)
  AUTHORS   Pabis,M., Neufeld,N., Steiner,M.C., Bojic,T., Shav-Tal,Y. and
            Neugebauer,K.M.
  TITLE     The nuclear cap-binding complex interacts with the U4/U6.U5
            tri-snRNP and promotes spliceosome assembly in mammalian cells
  JOURNAL   RNA 19 (8), 1054-1063 (2013)
   PUBMED   23793891
REFERENCE   4  (bases 1 to 2596)
  AUTHORS   Wahl,M.C., Will,C.L. and Luhrmann,R.
  TITLE     The spliceosome: design principles of a dynamic RNP machine
  JOURNAL   Cell 136 (4), 701-718 (2009)
   PUBMED   19239890
  REMARK    Review article
REFERENCE   5  (bases 1 to 2596)
  AUTHORS   Schaffert,N., Hossbach,M., Heintzmann,R., Achsel,T. and Luhrmann,R.
  TITLE     RNAi knockdown of hPrp31 leads to an accumulation of U4/U6
            di-snRNPs in Cajal bodies
  JOURNAL   EMBO J 23 (15), 3000-3009 (2004)
   PUBMED   15257298
REFERENCE   6  (bases 1 to 2596)
  AUTHORS   Teigelkamp,S., Achsel,T., Mundt,C., Gothel,S.F., Cronshagen,U.,
            Lane,W.S., Marahiel,M. and Luhrmann,R.
  TITLE     The 20kD protein of human [U4/U6.U5] tri-snRNPs is a novel
            cyclophilin that forms a complex with the U4/U6-specific 60kD and
            90kD proteins
  JOURNAL   RNA 4 (2), 127-141 (1998)
   PUBMED   9570313
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from CH473978.2.
            
            On or before Oct 4, 2007 this sequence version replaced
            XM_233022.4, XM_001057634.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC168915.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMD00132261, SAMD00132262
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
FEATURES             Location/Qualifiers
     source          1..2596
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10116"
                     /chromosome="5"
                     /map="5q24"
     gene            1..2596
                     /gene="Prpf4"
                     /note="pre-mRNA splicing tri-snRNP complex factor PRPF4"
                     /db_xref="GeneID:298095"
                     /db_xref="RGD:1311303"
     exon            1..102
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     CDS             76..1641
                     /gene="Prpf4"
                     /note="PRP4 pre-mRNA processing factor 4 homolog; pre-mRNA
                     splicing tri-snRNP complex factor 4"
                     /codon_start=1
                     /product="U4/U6 small nuclear ribonucleoprotein Prp4"
                     /protein_id="NP_001100129.1"
                     /db_xref="GeneID:298095"
                     /db_xref="RGD:1311303"
                     /translation="MASSRASSTTTKTKAPDDLVAPVVKKPHIYYGSLEEKERERLAK
                     GESGILGKEGLKAGIEAGNINITSGEVFEIEEHISERQAEVLAEFERRKRARQINVST
                     DDSEVKACLRALGEPITLFGEGPAERRERLRNILSVVGTDALKKTKKDDEKSKKSKEE
                     YQQTWYHEGPNSLKVARLWIANYSLPRAMKRLEEARLHKEIPETTRTSQMQELHKSLR
                     SLNNFCSQIGDDRPISYCHFSPNSKMLATACWSGLCKLWSVPDCSLLHTLRGHNTNVG
                     AIVFHPKSTVSLDQKDVNLASCAADGSVKLWSLDSDEPVADIEGHTVRVARVMWHPSG
                     RFLGTTCYDRSWRLWDLEAQEEILHQEGHSMGVYDIAFHQDGSLAGTGGLDAFGRVWD
                     LRTGRCIMFLEGHLKEIYGISFSPNGYHIATGSGDNTCKVWDLRQRRCVYTIPAHQNL
                     VTGVKFEPIHGDFLLTGAYDNTAKIWTHPGWSPLKTLAGHEGKVMGLDISSDGQLIAT
                     CSYDRTFKLWMAE"
     exon            103..280
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            281..467
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            468..555
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            556..635
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            636..729
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            730..824
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            825..883
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            884..1007
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            1008..1097
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            1098..1220
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            1221..1328
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            1329..1447
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
     exon            1448..2596
                     /gene="Prpf4"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 tttgctaggc gcgcggttcc cggtctgaaa agcagaacgg gatttggcta gggcctcgcg
       61 gctccagagc ccggcatggc ctcctcacga gcctcctcca cgacaaccaa aactaaagca
      121 cctgacgatt tagttgctcc tgttgtgaag aaaccacaca tctattatgg aagcttggaa
      181 gagaaagagc gggaacgcct ggccaaagga gagtctggga ttttgggaaa agaaggactc
      241 aaagccggca ttgaagcagg aaatattaat ataacgtctg gagaagtctt tgaaattgag
      301 gagcacatca gtgagcggca ggctgaagtc ttggcagagt ttgaaagaag aaagcgagcc
      361 cggcaaatca atgtttccac ggatgactca gaggtcaagg cttgccttag agccttggga
      421 gaaccgatca cactttttgg agagggccct gctgaacgaa gagaaaggtt aagaaatatt
      481 ctctcagtgg ttgggactga tgccttaaaa aagacaaaaa aagatgatga aaaatctaag
      541 aagtcaaaag aagagtatca gcaaacctgg taccatgaag ggccaaatag cctgaaggtg
      601 gccagattgt ggattgccaa ttattcactc cccagggcaa tgaaacgctt ggaggaggcc
      661 cgtctccata aggagattcc cgagaccacc agaacctccc agatgcagga gctgcacaag
      721 tctctccggt ctttgaataa tttctgcagt cagattggag atgaccggcc aatctcctac
      781 tgtcacttca gccccaattc taaaatgcta gccacagctt gttggagtgg gctctgcaag
      841 ctctggtctg tccctgactg cagcctcctt cacactcttc gaggccataa tacaaatgtc
      901 ggagcaattg tattccatcc caaatccact gtctccttgg accaaaaaga tgtcaacctg
      961 gcctcttgtg ctgctgatgg ctctgtgaag ctttggagtc ttgacagtga tgagccagtg
     1021 gcagatattg aaggccatac agtccgtgtg gctcgggtaa tgtggcatcc gtcagggcgt
     1081 ttcctgggca caacctgtta tgaccgttca tggcgcttat gggatttaga ggctcaagag
     1141 gagattctac accaggaagg ccacagcatg ggtgtgtatg acattgcctt ccatcaagat
     1201 ggctctttgg ctggcactgg gggactggat gcctttggcc gagtttggga cctacgcaca
     1261 ggacgctgca ttatgttcct agaaggccat ctgaaggaga tctacgggat aagtttctcc
     1321 cccaatggct accacattgc cactggcagt ggtgacaaca cctgcaaggt gtgggatctt
     1381 cgacagcgac gctgtgtcta caccatcccc gcccatcaga acttagtgac tggtgtcaag
     1441 tttgagccta tccatgggga cttcttgctc acgggtgcct atgacaacac agccaagatc
     1501 tggacccacc caggctggtc cccactgaag actctggctg ggcatgaggg caaagtgatg
     1561 ggcctagaca tttcttctga tgggcagctc atagccactt gctcatatga cagaaccttc
     1621 aagctctgga tggcagagta ggcaagacca tgggaggact ctgaccttgt gtctcactaa
     1681 ggagccatct tcctcagagg aaaagaattg tgttgtgttc tatcatgttt cctgccaaat
     1741 accgtgtgta ggattggatt ttcacgccag ccccacttct gagtaagcca gtccttaggc
     1801 gatagcaagc ccttcgtggt tagaacgcag ttctcatctc aggttctgcc gtaaactata
     1861 gacattatgt aggtgtctgc aaaacttcaa cacatttgaa tggcctccct cagcactcag
     1921 gattgtgact attctttcat ttttaattgt ttttttattt ggcattttga gacagtctat
     1981 gtatagccct gactgtcctg gaacttggta tatgtgtctg gaagcttcac attgtaagtg
     2041 atccccctgc ccctgccgtt caagtgatgg tgttacagaa atgtgctgtt gtgcctggca
     2101 gttgtgtatt ttatgcttga acttggctct ctagaacacg gcgtgtgctt gggactacgt
     2161 gtgattcagc aagcaagatg gctgaactgt atgaaatctc cccagttccg agggcatgtg
     2221 cctggcagca gctcctttcc tgctcccaag aatgggactg gagccataga ctgcgtctgt
     2281 gcgatggctc cactgtaaag ctgtccctct ttggtggcat ccacagagga tgttcactgc
     2341 atcaggaact cagaactgca cactgggcct tgtgagagct cttccttttg gctttgaagt
     2401 ttggcatcct tcgtgataaa acagtctggc cattgtatcc agattcaaag gagtttttta
     2461 aaacaaacat gatgtctgtg ttgtacaacc tccttcctgt tggttattta atgggtgtac
     2521 tttatgtatt aaagaacact tcatgtcaaa gtaactggaa aaaattctaa tttatgtttg
     2581 ggtgttccca aacata
//
