LOCUS       NM_138888                857 bp    mRNA    linear   ROD 01-APR-2024
DEFINITION  Rattus norvegicus PHD finger protein 5A (Phf5a), mRNA.
ACCESSION   NM_138888
VERSION     NM_138888.2
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 857)
  AUTHORS   Zhang,X., Yan,C., Zhan,X., Li,L., Lei,J. and Shi,Y.
  TITLE     Structure of the human activated spliceosome in three
            conformational states
  JOURNAL   Cell Res 28 (3), 307-322 (2018)
   PUBMED   29360106
REFERENCE   2  (bases 1 to 857)
  AUTHORS   Teng,T., Tsai,J.H., Puyang,X., Seiler,M., Peng,S., Prajapati,S.,
            Aird,D., Buonamici,S., Caleb,B., Chan,B., Corson,L., Feala,J.,
            Fekkes,P., Gerard,B., Karr,C., Korpal,M., Liu,X., T Lowe,J.,
            Mizui,Y., Palacino,J., Park,E., Smith,P.G., Subramanian,V.,
            Wu,Z.J., Zou,J., Yu,L., Chicas,A., Warmuth,M., Larsen,N. and Zhu,P.
  TITLE     Splicing modulators act at the branch point adenosine binding
            pocket defined by the PHF5A-SF3b complex
  JOURNAL   Nat Commun 8, 15522 (2017)
   PUBMED   28541300
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 857)
  AUTHORS   Strikoudis,A., Lazaris,C., Trimarchi,T., Galvao Neto,A.L., Yang,Y.,
            Ntziachristos,P., Rothbart,S., Buckley,S., Dolgalev,I.,
            Stadtfeld,M., Strahl,B.D., Dynlacht,B.D., Tsirigos,A. and
            Aifantis,I.
  TITLE     Regulation of transcriptional elongation in pluripotency and cell
            differentiation by the PHD-finger protein Phf5a
  JOURNAL   Nat Cell Biol 18 (11), 1127-1138 (2016)
   PUBMED   27749823
REFERENCE   4  (bases 1 to 857)
  AUTHORS   Cretu,C., Schmitzova,J., Ponce-Salvatierra,A., Dybkov,O., De
            Laurentiis,E.I., Sharma,K., Will,C.L., Urlaub,H., Luhrmann,R. and
            Pena,V.
  TITLE     Molecular Architecture of SF3b and Structural Consequences of Its
            Cancer-Related Mutations
  JOURNAL   Mol Cell 64 (2), 307-319 (2016)
   PUBMED   27720643
REFERENCE   5  (bases 1 to 857)
  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   6  (bases 1 to 857)
  AUTHORS   Rzymski,T., Grzmil,P., Meinhardt,A., Wolf,S. and Burfeind,P.
  TITLE     PHF5A represents a bridge protein between splicing proteins and
            ATP-dependent helicases and is differentially expressed during
            mouse spermatogenesis
  JOURNAL   Cytogenet Genome Res 121 (3-4), 232-244 (2008)
   PUBMED   18758164
REFERENCE   7  (bases 1 to 857)
  AUTHORS   Will,C.L., Schneider,C., Hossbach,M., Urlaub,H., Rauhut,R.,
            Elbashir,S., Tuschl,T. and Luhrmann,R.
  TITLE     The human 18S U11/U12 snRNP contains a set of novel proteins not
            found in the U2-dependent spliceosome
  JOURNAL   RNA 10 (6), 929-941 (2004)
   PUBMED   15146077
REFERENCE   8  (bases 1 to 857)
  AUTHORS   Oltra,E., Pfeifer,I. and Werner,R.
  TITLE     Ini, a small nuclear protein that enhances the response of the
            connexin43 gene to estrogen
  JOURNAL   Endocrinology 144 (7), 3148-3158 (2003)
   PUBMED   12810571
  REMARK    GeneRIF: that Ini's physiological role in myometrium is to modulate
            the response of the cx43 gene to estrogen.
REFERENCE   9  (bases 1 to 857)
  AUTHORS   Will,C.L., Urlaub,H., Achsel,T., Gentzel,M., Wilm,M. and
            Luhrmann,R.
  TITLE     Characterization of novel SF3b and 17S U2 snRNP proteins, including
            a human Prp5p homologue and an SF3b DEAD-box protein
  JOURNAL   EMBO J 21 (18), 4978-4988 (2002)
   PUBMED   12234937
REFERENCE   10 (bases 1 to 857)
  AUTHORS   Trappe,R., Ahmed,M., Glaser,B., Vogel,C., Tascou,S., Burfeind,P.
            and Engel,W.
  TITLE     Identification and characterization of a novel murine multigene
            family containing a PHD-finger-like motif
  JOURNAL   Biochem Biophys Res Commun 293 (2), 816-826 (2002)
   PUBMED   12054543
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JAXUCZ010000007.1.
            
            On Nov 27, 2020 this sequence version replaced NM_138888.1.
            
            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 :: AF495522.1, BC168144.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760434,
                                           SAMN12840107 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-52                JAXUCZ010000007.1  115265123-115265174 c
            53-76               JAXUCZ010000007.1  115264471-115264494 c
            77-243              JAXUCZ010000007.1  115263802-115263968 c
            244-857             JAXUCZ010000007.1  115258609-115259222 c
FEATURES             Location/Qualifiers
     source          1..857
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="7"
                     /map="7q34"
     gene            1..857
                     /gene="Phf5a"
                     /gene_synonym="Ac2-246"
                     /note="PHD finger protein 5A"
                     /db_xref="GeneID:192246"
                     /db_xref="RGD:621555"
     CDS             1..333
                     /gene="Phf5a"
                     /gene_synonym="Ac2-246"
                     /note="SF3b14b; PHD finger-like domain protein 5A;
                     splicing factor 3B-associated 14 kDa protein;
                     transcription factor INI"
                     /codon_start=1
                     /product="PHD finger-like domain-containing protein 5A"
                     /protein_id="NP_620243.1"
                     /db_xref="GeneID:192246"
                     /db_xref="RGD:621555"
                     /translation="MAKHHPDLIFCRKQAGVAIGRLCEKCDGKCVICDSYVRPCTLVR
                     ICDECNYGSYQGRCVICGGPGVSDAYYCKECTIQEKDRDGCPKIVNLGSSKTDLFYER
                     KKYGFKKR"
     exon            1..52
                     /gene="Phf5a"
                     /gene_synonym="Ac2-246"
                     /inference="alignment:Splign:2.1.0"
     exon            53..76
                     /gene="Phf5a"
                     /gene_synonym="Ac2-246"
                     /inference="alignment:Splign:2.1.0"
     exon            77..243
                     /gene="Phf5a"
                     /gene_synonym="Ac2-246"
                     /inference="alignment:Splign:2.1.0"
     exon            244..857
                     /gene="Phf5a"
                     /gene_synonym="Ac2-246"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 atggctaaac atcatccaga tttgattttc tgccgcaagc aggctggtgt agctatcgga
       61 agactgtgtg aaaaatgtga tggcaaatgt gtgatctgcg attcctacgt gcgtccctgt
      121 accctggttc gcatatgtga tgagtgtaac tatggatcct accagggccg ctgcgtgatc
      181 tgtggaggtc ccggagtctc tgatgcctac tattgtaaag agtgcaccat tcaggagaag
      241 gatagagatg gttgcccaaa gattgtcaat ttggggagct ctaagacaga cctgttctat
      301 gagcgcaaaa aatacggttt caagaagagg tgatggctgg gtggctcctt cctcccccat
      361 cgaactgctg cagcttccag gaaagacgcc tactaccacc agcagaaagg gaacggagtt
      421 cagagtgtca ccagagcagc ctgctagtgc tagcgccctg gcccctgcca ccccttcttt
      481 cccttccccg tgttgctgag atggaagcga gttcccacac agcaagcacc cttgcagact
      541 ggaggagatg tcactcactt agtctgtagt ttccttttgt ttttagttga aaagcaaggc
      601 tctgctctcc acatcgatcc tttccactac aaaagcttca gagcacgtca gtataccgcc
      661 ttgacaaaac tgtcattcag aagtgtgctc ttgcagcagc tatgatgggg ttgtcctgga
      721 ccctcagggt ggccaggtgc catcagaaca gtaatgtgat gtgacatttc ccaggtggtg
      781 ctgggttcat tgttaatttc cttcttataa attggaagtt tctgttattc taataaagtt
      841 gtctgtattt tctggaa
//
