LOCUS       NM_015962               4341 bp    mRNA    linear   PRI 09-FEB-2025
DEFINITION  Homo sapiens FCF1 rRNA-processing protein (FCF1), transcript
            variant 1, mRNA.
ACCESSION   NM_015962
VERSION     NM_015962.5
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 4341)
  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   2  (bases 1 to 4341)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   3  (bases 1 to 4341)
  AUTHORS   Tomecki,R., Labno,A., Drazkowska,K., Cysewski,D. and Dziembowski,A.
  TITLE     hUTP24 is essential for processing of the human rRNA precursor at
            site A1, but not at site A0
  JOURNAL   RNA Biol 12 (9), 1010-1029 (2015)
   PUBMED   26237581
  REMARK    GeneRIF: hUTP24 inactivation leads to aberrant processing of 18S
            rRNA 2 nucleotides downstream of the normal A1 cleavage site.
REFERENCE   4  (bases 1 to 4341)
  AUTHORS   Castello,A., Fischer,B., Eichelbaum,K., Horos,R., Beckmann,B.M.,
            Strein,C., Davey,N.E., Humphreys,D.T., Preiss,T., Steinmetz,L.M.,
            Krijgsveld,J. and Hentze,M.W.
  TITLE     Insights into RNA biology from an atlas of mammalian mRNA-binding
            proteins
  JOURNAL   Cell 149 (6), 1393-1406 (2012)
   PUBMED   22658674
REFERENCE   5  (bases 1 to 4341)
  AUTHORS   Rempola,B., Karkusiewicz,I., Piekarska,I. and Rytka,J.
  TITLE     Fcf1p and Fcf2p are novel nucleolar Saccharomyces cerevisiae
            proteins involved in pre-rRNA processing
  JOURNAL   Biochem Biophys Res Commun 346 (2), 546-554 (2006)
   PUBMED   16762320
REFERENCE   6  (bases 1 to 4341)
  AUTHORS   Andersen,J.S., Lam,Y.W., Leung,A.K., Ong,S.E., Lyon,C.E.,
            Lamond,A.I. and Mann,M.
  TITLE     Nucleolar proteome dynamics
  JOURNAL   Nature 433 (7021), 77-83 (2005)
   PUBMED   15635413
REFERENCE   7  (bases 1 to 4341)
  AUTHORS   Wellenreuther,R., Schupp,I., Poustka,A. and Wiemann,S.
  CONSRTM   German cDNA Consortium
  TITLE     SMART amplification combined with cDNA size fractionation in order
            to obtain large full-length clones
  JOURNAL   BMC Genomics 5 (1), 36 (2004)
   PUBMED   15198809
  REMARK    Publication Status: Online-Only
REFERENCE   8  (bases 1 to 4341)
  AUTHORS   Heilig,R., Eckenberg,R., Petit,J.L., Fonknechten,N., Da Silva,C.,
            Cattolico,L., Levy,M., Barbe,V., de Berardinis,V., Ureta-Vidal,A.,
            Pelletier,E., Vico,V., Anthouard,V., Rowen,L., Madan,A., Qin,S.,
            Sun,H., Du,H., Pepin,K., Artiguenave,F., Robert,C., Cruaud,C.,
            Bruls,T., Jaillon,O., Friedlander,L., Samson,G., Brottier,P.,
            Cure,S., Segurens,B., Aniere,F., Samain,S., Crespeau,H., Abbasi,N.,
            Aiach,N., Boscus,D., Dickhoff,R., Dors,M., Dubois,I., Friedman,C.,
            Gouyvenoux,M., James,R., Madan,A., Mairey-Estrada,B., Mangenot,S.,
            Martins,N., Menard,M., Oztas,S., Ratcliffe,A., Shaffer,T.,
            Trask,B., Vacherie,B., Bellemere,C., Belser,C., Besnard-Gonnet,M.,
            Bartol-Mavel,D., Boutard,M., Briez-Silla,S., Combette,S.,
            Dufosse-Laurent,V., Ferron,C., Lechaplais,C., Louesse,C.,
            Muselet,D., Magdelenat,G., Pateau,E., Petit,E.,
            Sirvain-Trukniewicz,P., Trybou,A., Vega-Czarny,N., Bataille,E.,
            Bluet,E., Bordelais,I., Dubois,M., Dumont,C., Guerin,T.,
            Haffray,S., Hammadi,R., Muanga,J., Pellouin,V., Robert,D.,
            Wunderle,E., Gauguet,G., Roy,A., Sainte-Marthe,L., Verdier,J.,
            Verdier-Discala,C., Hillier,L., Fulton,L., McPherson,J.,
            Matsuda,F., Wilson,R., Scarpelli,C., Gyapay,G., Wincker,P.,
            Saurin,W., Quetier,F., Waterston,R., Hood,L. and Weissenbach,J.
  TITLE     The DNA sequence and analysis of human chromosome 14
  JOURNAL   Nature 421 (6923), 601-607 (2003)
   PUBMED   12508121
  REMARK    Erratum:[Nature. 2023 Aug;620(7973):E17. doi:
            10.1038/s41586-023-06403-y.. PMID: 37491470]
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC007956.5, BX489015.1 and BX647810.1.
            
            On May 17, 2019 this sequence version replaced NM_015962.4.
            
            Transcript Variant: This variant (1) encodes the longer isoform
            (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: BX647810.1, SRR7346977.844864.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000341162.8/ ENSP00000344393.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-3                 AC007956.5         96110-96112
            4-19                BX489015.1         3-18
            20-1389             BX647810.1         43-1412
            1390-2412           AC007956.5         118635-119657
            2413-4341           AC007956.5         119658-121586
FEATURES             Location/Qualifiers
     source          1..4341
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="14"
                     /map="14q24.3"
     gene            1..4341
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /note="FCF1 rRNA-processing protein"
                     /db_xref="GeneID:51077"
                     /db_xref="HGNC:HGNC:20220"
     exon            1..57
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /inference="alignment:Splign:2.1.0"
     CDS             55..651
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /note="isoform 1 is encoded by transcript variant 1;
                     rRNA-processing protein FCF1 homolog; FCF1 small subunit"
                     /codon_start=1
                     /product="rRNA-processing protein FCF1 homolog isoform 1"
                     /protein_id="NP_057046.1"
                     /db_xref="CCDS:CCDS9832.1"
                     /db_xref="GeneID:51077"
                     /db_xref="HGNC:HGNC:20220"
                     /translation="MGKQKKTRKYATMKRMLSLRDQRLKEKDRLKPKKKEKKDPSALK
                     EREVPQHPSCLFFQYNTQLGPPYHILVDTNFINFSIKAKLDLVQSMMDCLYAKCIPCI
                     TDCVMAEIEKLGQKYRVALRIAKDPRFERLPCTHKGTYADDCLVQRVTQHKCYIVATV
                     DRDLKRRIRKIPGVPIMYISNHRYNIERMPDDYGAPRF"
     exon            58..125
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /inference="alignment:Splign:2.1.0"
     exon            126..197
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /inference="alignment:Splign:2.1.0"
     exon            198..346
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /inference="alignment:Splign:2.1.0"
     exon            347..419
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /inference="alignment:Splign:2.1.0"
     exon            420..507
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /inference="alignment:Splign:2.1.0"
     exon            508..602
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /inference="alignment:Splign:2.1.0"
     exon            603..4341
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2404..2409
                     /regulatory_class="polyA_signal_sequence"
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /note="hexamer: AATAAA"
     polyA_site      2435
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /note="major polyA site"
     regulatory      2496..2501
                     /regulatory_class="polyA_signal_sequence"
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /note="hexamer: AATAAA"
     polyA_site      2516
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
     regulatory      4317..4322
                     /regulatory_class="polyA_signal_sequence"
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
                     /note="hexamer: AATAAA"
     polyA_site      4341
                     /gene="FCF1"
                     /gene_synonym="Bka; C14orf111; CGI-35; UTP24"
ORIGIN      
        1 gtagaagtat tgcgccgttg gtgattacgg aagaaccagg agtttggcgt gaccatgggg
       61 aagcaaaaga aaacaaggaa gtatgcgacc atgaagcgaa tgcttagtct cagagatcag
      121 aggcttaaag aaaaggatag attaaaacct aaaaagaaag aaaagaagga tcccagcgca
      181 ttaaaggaaa gagaagttcc ccaacaccct tcctgcttat ttttccaata taatacacag
      241 ctgggcccac cttaccacat cctcgttgat accaacttta tcaacttttc cataaaagcc
      301 aaactggact tagtgcagtc aatgatggac tgtctgtatg ccaagtgtat cccatgtata
      361 accgattgtg taatggctga aattgagaaa ttggggcaga agtatcgagt ggctctaagg
      421 attgccaagg atccaagatt tgaacgatta ccatgtacac acaaaggaac ctatgcagat
      481 gactgcttag tacagagagt aactcagcat aagtgttaca ttgtggccac agttgaccgg
      541 gacctgaaaa gaagaatccg taagattcct ggagttccta tcatgtacat ttctaaccat
      601 agatacaaca ttgaacggat gccagatgat tatggagccc ctcgattcta attcttacaa
      661 gacacagttc ctctgccttt cttcgaccaa ctttctcttg ttgccagttc attacacaaa
      721 atgtagcggg atttttaagg aatcagagag actgatggag ttcagggaga tatttattat
      781 ttaggtgcac cagcccagtc agattaacat ccaaaggact gaaccctgaa cagagttaag
      841 ttacctttta agcattttgt ggggccgcgg gggttggggg gaatctgtgc agggggaagc
      901 atattacaga agcaagaaag acagttattc aattaactga gacatgcatt acatcatttc
      961 ttacttttca aggaaaatca tgttttacga cttgagttta tctgtctagt taccttgcag
     1021 ctgcacagct agagaaacag ggtatttaca atgcctggga aaggaggaga gataaggctc
     1081 actagccaca gaaaaacagg cagttaattt ttaaaggact ccagctcttt ctctttctca
     1141 cggggaattg gattttctta catgcaactg aatttctgct tacacatttt taaatttctt
     1201 ttaattgctt ttccaatgca atagcatgaa ttattattct gttgacctat ttgccttact
     1261 atgagctgag ggtagttcaa tatgctcact cttttttttt tttttcttga gatgaagttt
     1321 tgctctgtca ccaggctgga gtgcagtggc gtgatctggg ctcactgcaa cccctgcctc
     1381 ccatccttca agtgattctc ctgcctcagc ctcccgagta gctgggatta caggtacaca
     1441 ccaccatgct caactaattt ttcttttttg ggcggggggg gtggatattt ttagtagaga
     1501 caaatacttt tgtattttta atacagaaaa gtatgcctcg gcctcccaaa gtgctggaat
     1561 tacagacatg agccactgtg cctggcctgc tcactttctg atgctgcttt tttgttgttt
     1621 gtttgtttat ttgtttgttt tgagacggag tctcgctctg tcaccaggct ggagtgcagt
     1681 ggcgcaatct cggctcattg caacctccgc ctcccaggtt caagcgattc tcctgcctca
     1741 gcctgcggag tagctgggac tataggtgcg tgccaccacg tccagccact gatgctgttt
     1801 tgccactgat gctgttttga aattgatatt ttgtctcata aaaactaggc caggcatggt
     1861 ggctcattcc tgtaatccca gcactttggg aggccaaggt gggtggatca cctgaggtca
     1921 ggagttggag atgagcctgg acaacatggc aaaaccccac ctctactaaa aatacaaaaa
     1981 aaattagctg ggtatggtgt cacgtgcctg taatcccagc cactggggag gctgaggcag
     2041 gagaacctct tgaacccagg aggtggaggt tgcagtgagc tgagattgcg ccactgcatt
     2101 ccagcctggg tgacagagtg agactgtctc aaaaaaaaaa aaaaattaat gatggtcaaa
     2161 gggtataaaa tctcagacag gaagaatatg ttttatgctt tttttgagtt ctgttgtaca
     2221 gtgtggtgcc tatacttaat aatggggtat tatacatttc aaaattgatg ttctcatcac
     2281 agaaatgtat ttgaagtatt gcatatgtta actagcttga tttaactatt ccatattgta
     2341 tccacaattt atgatatcac tttgtaaccc atacatttat acaattataa attgtcaatt
     2401 tacaataaaa aatttttgtt gcgtcttttt agaaatcaga tattctgatg attgctcaca
     2461 taatttggcg gtcattgttt tatactgact tactcaataa acatttatta aatgtatact
     2521 aggtgcttaa taagagatgg tcctgccctc aagacactca ttatggtggg aaagaaaaac
     2581 atgtaaatga ataaatgccg taaaatagca gtgctagggt aaaagtttca gaggcatgtc
     2641 atgggcacat aaaggtggaa tgattttttt ctactggttg ggatggagag ggaggaaagg
     2701 ccagtggtca tgtggtttga gctaatctta aaaatgaata ggtgcctccc cagtaaatta
     2761 ggaatggaag atgaagcata ggaaacagta caccatagaa aatccattaa cctatgtata
     2821 atcccagcac tttgggagac tgaggtgggc agatcacttg aggtcaggag tttgaaacca
     2881 gcctggccaa catggtgaaa ccccacctct actaaaaatt ccaaaattaa ctgggcgtgg
     2941 tggtgcaagc ctgtagtccc agctacttgg gaggctgagg caggagaatc gcttgaaccc
     3001 gggaggcaga ggttgcaacg agccgagatc acgccactgc actccagcct gggcgacaga
     3061 gtgaaactct gtctcaaaaa caaacaaaca aaaaacctat gtatttgtgg ggatttggta
     3121 tattattaag gtggtatttc gtttctgtgg gaaaaggaaa tttcattaac aggccaaata
     3181 gtctggagtc attctgttag tgttagaata ctaattccac cagttaatat ctgtatgagt
     3241 tggacaaacc atataaccat ctgttgcctt ccttgtttcc tctttaaagt gtttaatccg
     3301 caaaacaaac ctgataaagt gagattaaat tgaatagtac ctggcccaag taagtgttct
     3361 tcagtaaatg ttagtgatta ttacacaatg gcaaggtggc tatccatttg aaaaaaaatt
     3421 aggccgggcg tggtggctca cacctgtaat cccaacactt tgggaggcca aggtgggcgg
     3481 atcacctgag gtcaggagcc caagaccagc ctgaccaaca tggagaaacc ccatctctac
     3541 taaaaataca aaaaaacaat taggcaggca tggtggcaaa tgcctgtatt cccagctact
     3601 ctggaggctg aggcaggaga acgcttgaac ctgggagatg gaggttgtga tgagccgaga
     3661 tcatgccatt gcactcattc cagcctgggc aacaagagtg aaactctgtc tcaaaaaaaa
     3721 aaaaaaaaaa agagagagag aaaaaaatta gtttcctact tcacatgatt cataaaaata
     3781 tttcaagtgg atcaaagacc taaatttttt ttttttttga gacagtttct cactctgtca
     3841 cccaggctgc agtgcgttgg cacaatcatg actcactgca gccttgacct tcccaggccc
     3901 tgatgatcca ccccagcctc tcaagtagct gggatttttg tatttcttac agagatggga
     3961 ttttgcctta ttgcccacct tggccttcta aagtattggg attatgggca tgagccactg
     4021 cacccaccct aaacttattt ctaagctatg gaagcattag gaaaataaat gtaaagaaaa
     4081 acgtgtttat cacctttgga tagaattctt aagcagaatc taaaaagatt gaagagtttg
     4141 aatatattaa aattatagat ttctgtgcaa gacactcccc tcccctaaaa aacaagtgac
     4201 tgatgagatt ttccaataca tgtaacaagg gtttagagaa atgagtactg atgtcatgct
     4261 gacagaagtg caaatattta tggccatttt ttacagctgt tgacaagatc cactaaaata
     4321 aaaattgcag atatcctgtg a
//
