LOCUS       NM_004704               1542 bp    mRNA    linear   PRI 09-FEB-2025
DEFINITION  Homo sapiens ribosomal RNA processing 9, U3 small nucleolar RNA
            binding protein (RRP9), mRNA.
ACCESSION   NM_004704
VERSION     NM_004704.5
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 1542)
  AUTHORS   Liu,H., Chi,X., Yang,N., Shan,M., Xiao,Y., Zhang,M., Hao,Y.,
            Hou,S., Liu,Y. and Wang,Y.
  TITLE     Joint effect of RRP9 and DDX21 on development of colorectal cancer
            and keloid
  JOURNAL   Aging (Albany NY) 15 (24), 14703-14719 (2023)
   PUBMED   37988222
  REMARK    GeneRIF: Joint effect of RRP9 and DDX21 on development of
            colorectal cancer and keloid.
REFERENCE   2  (bases 1 to 1542)
  AUTHORS   Chi,X., Yang,N. and Liu,Y.
  TITLE     RRP9 and DDX21 as new biomarkers of colorectal cancer
  JOURNAL   Medicine (Baltimore) 102 (43), e34384 (2023)
   PUBMED   37904456
  REMARK    GeneRIF: RRP9 and DDX21 as new biomarkers of colorectal cancer.
REFERENCE   3  (bases 1 to 1542)
  AUTHORS   Du,M.G., Liu,F., Chang,Y., Tong,S., Liu,W., Chen,Y.J. and Xie,P.
  TITLE     Neddylation modification of the U3 snoRNA-binding protein RRP9 by
            Smurf1 promotes tumorigenesis
  JOURNAL   J Biol Chem 297 (5), 101307 (2021)
   PUBMED   34662580
  REMARK    GeneRIF: Neddylation modification of the U3 snoRNA-binding protein
            RRP9 by Smurf1 promotes tumorigenesis.
            Erratum:[J Biol Chem. 2022 Nov;298(11):102567. doi:
            10.1016/j.jbc.2022.102567.. PMID: 36270201]
REFERENCE   4  (bases 1 to 1542)
  AUTHORS   Singh,S., Vanden Broeck,A., Miller,L., Chaker-Margot,M. and
            Klinge,S.
  TITLE     Nucleolar maturation of the human small subunit processome
  JOURNAL   Science 373 (6560), eabj5338 (2021)
   PUBMED   34516797
REFERENCE   5  (bases 1 to 1542)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   6  (bases 1 to 1542)
  AUTHORS   Granneman,S., Pruijn,G.J., Horstman,W., van Venrooij,W.J.,
            Luhrmann,R. and Watkins,N.J.
  TITLE     The hU3-55K protein requires 15.5K binding to the box B/C motif as
            well as flanking RNA elements for its association with the U3 small
            nucleolar RNA in Vitro
  JOURNAL   J Biol Chem 277 (50), 48490-48500 (2002)
   PUBMED   12381732
REFERENCE   7  (bases 1 to 1542)
  AUTHORS   Verheggen,C., Lafontaine,D.L., Samarsky,D., Mouaikel,J.,
            Blanchard,J.M., Bordonne,R. and Bertrand,E.
  TITLE     Mammalian and yeast U3 snoRNPs are matured in specific and related
            nuclear compartments
  JOURNAL   EMBO J 21 (11), 2736-2745 (2002)
   PUBMED   12032086
  REMARK    GeneRIF: Mammalian and yeast U3 snoRNPs are matured in specific and
            related nuclear compartments.
REFERENCE   8  (bases 1 to 1542)
  AUTHORS   Andersen,J.S., Lyon,C.E., Fox,A.H., Leung,A.K., Lam,Y.W., Steen,H.,
            Mann,M. and Lamond,A.I.
  TITLE     Directed proteomic analysis of the human nucleolus
  JOURNAL   Curr Biol 12 (1), 1-11 (2002)
   PUBMED   11790298
REFERENCE   9  (bases 1 to 1542)
  AUTHORS   Lukowiak,A.A., Granneman,S., Mattox,S.A., Speckmann,W.A., Jones,K.,
            Pluk,H., Venrooij,W.J., Terns,R.M. and Terns,M.P.
  TITLE     Interaction of the U3-55k protein with U3 snoRNA is mediated by the
            box B/C motif of U3 and the WD repeats of U3-55k
  JOURNAL   Nucleic Acids Res 28 (18), 3462-3471 (2000)
   PUBMED   10982864
REFERENCE   10 (bases 1 to 1542)
  AUTHORS   Pluk,H., Soffner,J., Luhrmann,R. and van Venrooij,W.J.
  TITLE     cDNA cloning and characterization of the human U3 small nucleolar
            ribonucleoprotein complex-associated 55-kilodalton protein
  JOURNAL   Mol Cell Biol 18 (1), 488-498 (1998)
   PUBMED   9418896
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC010048.1, AC115284.4 and
            AA465355.1.
            
            On Nov 23, 2018 this sequence version replaced NM_004704.4.
            
            Summary: This gene encodes a member of the WD-repeat protein
            family. The encoded protein is a component of the nucleolar small
            nuclear ribonucleoprotein particle (snoRNP) and is essential for
            18s rRNA processing during ribosome synthesis. It contains seven WD
            domains required for nucleolar localization and specific
            interaction with the U3 small nucleolar RNA (U3 snoRNA). [provided
            by RefSeq, Oct 2012].
            
            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 :: BC009879.2, AK313696.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000232888.7/ ENSP00000232888.6
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-5                 BC010048.1         21-25
            6-6                 AC115284.4         23786-23786         c
            7-1540              BC010048.1         27-1560
            1541-1542           AA465355.1         12-13               c
FEATURES             Location/Qualifiers
     source          1..1542
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="3"
                     /map="3p21.2"
     gene            1..1542
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /note="ribosomal RNA processing 9, U3 small nucleolar RNA
                     binding protein"
                     /db_xref="GeneID:9136"
                     /db_xref="HGNC:HGNC:16829"
                     /db_xref="MIM:620013"
     exon            1..124
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     CDS             38..1465
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /note="RNA, U3 small nucleolar interacting protein 2; U3
                     snoRNP-associated 55-kDa protein; RRP9 homolog; U3 small
                     nucleolar ribonucleoprotein-associated 55 kDa protein;
                     RRP9, small subunit (SSU) processome component, homolog;
                     ribosomal RNA processing 9, small subunit (SSU) processome
                     component, homolog"
                     /codon_start=1
                     /product="U3 small nucleolar RNA-interacting protein 2"
                     /protein_id="NP_004695.1"
                     /db_xref="CCDS:CCDS2837.1"
                     /db_xref="GeneID:9136"
                     /db_xref="HGNC:HGNC:16829"
                     /db_xref="MIM:620013"
                     /translation="MSATAAARKRGKPASGAGAGAGAGKRRRKADSAGDRGKSKGGGK
                     MNEEISSDSESESLAPRKPEEEEEEELEETAQEKKLRLAKLYLEQLRQQEEEKAEARA
                     FEEDQVAGRLKEDVLEQRGRLQKLVAKEIQAPASADIRVLRGHQLSITCLVVTPDDSA
                     IFSAAKDCSIIKWSVESGRKLHVIPRAKKGAEGKPPGHSSHVLCMAISSDGKYLASGD
                     RSKLILIWEAQSCQHLYTFTGHRDAVSGLAFRRGTHQLYSTSHDRSVKVWNVAENSYV
                     ETLFGHQDAVAALDALSRECCVTAGGRDGTVRVWKIPEESQLVFYGHQGSIDCIHLIN
                     EEHMVSGADDGSVALWGLSKKRPLALQREAHGLRGEPGLEQPFWISSVAALLNTDLVA
                     TGSHSSCVRLWQCGEGFRQLDLLCDIPLVGFINSLKFSSSGDFLVAGVGQEHRLGRWW
                     RIKEARNSVCIIPLRRVPVPPAAGS"
     exon            125..207
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            208..317
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            318..385
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            386..427
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            428..554
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            555..679
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            680..772
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            773..873
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            874..1008
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            1009..1071
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            1072..1217
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            1218..1297
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            1298..1371
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     exon            1372..1542
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1520..1525
                     /regulatory_class="polyA_signal_sequence"
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /note="hexamer: ATTAAA"
     polyA_site      1542
                     /gene="RRP9"
                     /gene_synonym="RNU3IP2; U3-55K"
                     /note="major polyA site"
ORIGIN      
        1 gagttctgcg gccgctgcta cacgcctggt gggcagcatg tcggcaacag cggctgctcg
       61 taagcgggga aagccggcct ctggggccgg ggctggcgcg ggggccggca agcggcggcg
      121 aaaggccgac tctgcggggg acaggggcaa atccaagggt ggcggcaaga tgaatgagga
      181 gatctccagc gactctgaga gcgagagcct agctccaagg aagcctgagg aggaggagga
      241 ggaggagctg gaggaaactg cacaggaaaa gaagctgcgc ttggccaagc tctacctaga
      301 gcagctccgt cagcaagagg aggagaaggc tgaggcccgt gcatttgagg aggaccaggt
      361 ggcggggcgc ctgaaggagg atgtgcttga gcagaggggc aggctgcaga agttggtggc
      421 aaaagagatc caggccccag cctcagctga cattcgcgtt ttacgggggc accagctctc
      481 tatcacatgt ttggtcgtca cccccgatga ctcagccatc ttctctgctg ccaaagactg
      541 cagcatcatt aagtggagcg tggagagtgg acggaagctg catgtgattc ctcgagccaa
      601 gaagggtgcc gagggaaagc cccctggcca cagcagccac gtcctctgca tggccatctc
      661 ctccgacggc aagtaccttg cctctggtga ccgcagcaag ctcattctca tttgggaggc
      721 ccagagctgc cagcacttgt acaccttcac aggacaccgg gatgcagtgt cgggtctggc
      781 attccgcaga ggcacccacc agctctacag cacatcccac gatcgctccg tgaaggtgtg
      841 gaatgtggca gagaactcct acgtggagac gctcttcgga caccaggacg ctgtggctgc
      901 actggatgcc ttgagccggg agtgctgtgt gacggctggg ggccgggatg ggactgtacg
      961 tgtgtggaag atccccgagg agtcccagct tgtcttctat ggccaccagg gctccatcga
     1021 ctgcatccac ctaatcaatg aggagcacat ggtgtccggc gcggacgatg gctctgtggc
     1081 cttgtggggt ctctccaaga agcgaccact tgccctgcag cgtgaagctc acgggctgcg
     1141 gggagagcca ggcctggagc agcccttctg gatatcgtcg gtggcagccc tcctcaacac
     1201 agaccttgtg gccacaggct cccacagctc ctgtgtgcgg ctttggcagt gtggggaagg
     1261 cttccggcag cttgaccttc tctgtgacat ccccctggtg ggttttatca acagcctcaa
     1321 gttctccagc tctggggact tcctggtggc tggggtaggg caggagcaca ggcttggccg
     1381 atggtggaga atcaaagagg ctcggaattc tgtctgcatc atcccactcc gcagggtccc
     1441 tgtaccccca gctgctggtt cctgacactc ttatcctcct tatttaagtc cttcccaggc
     1501 tatgccccac cctctttgta ttaaaagcct cctcttttgg gc
//
