LOCUS       NM_024936               2797 bp    mRNA    linear   PRI 11-FEB-2025
DEFINITION  Homo sapiens zinc finger CCHC-type containing 4 (ZCCHC4),
            transcript variant 1, mRNA.
ACCESSION   NM_024936 XM_376310 XM_933306 XM_940889 XM_944866
VERSION     NM_024936.3
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 2797)
  AUTHORS   Chen,K., Zhang,J., Meng,L., Kong,L., Lu,M., Wang,Z. and Wang,W.
  TITLE     The epigenetic downregulation of LncGHRLOS mediated by RNA m6A
            methylase ZCCHC4 promotes colorectal cancer tumorigenesis
  JOURNAL   J Exp Clin Cancer Res 43 (1), 44 (2024)
   PUBMED   38326863
  REMARK    GeneRIF: The epigenetic downregulation of LncGHRLOS mediated by RNA
            m6A methylase ZCCHC4 promotes colorectal cancer tumorigenesis.
            Erratum:[J Exp Clin Cancer Res. 2024 Mar 12;43(1):78. doi:
            10.1186/s13046-024-03005-y.. PMID: 38561777]
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2797)
  AUTHORS   Luo,L., Tang,X., Liu,L., Tang,G., Chen,L., Chang,G. and Xiao,Z.
  TITLE     ZCCHC4 Promotes Osteosarcoma Progression by Upregulating ITGB1
  JOURNAL   Crit Rev Eukaryot Gene Expr 33 (8), 31-39 (2023)
   PUBMED   37606162
  REMARK    GeneRIF: ZCCHC4 Promotes Osteosarcoma Progression by Upregulating
            ITGB1.
REFERENCE   3  (bases 1 to 2797)
  AUTHORS   Zhu,H., Chen,K., Chen,Y., Liu,J., Zhang,X., Zhou,Y., Liu,Q.,
            Wang,B., Chen,T. and Cao,X.
  TITLE     RNA-binding protein ZCCHC4 promotes human cancer chemoresistance by
            disrupting DNA-damage-induced apoptosis
  JOURNAL   Signal Transduct Target Ther 7 (1), 240 (2022)
   PUBMED   35853866
  REMARK    GeneRIF: RNA-binding protein ZCCHC4 promotes human cancer
            chemoresistance by disrupting DNA-damage-induced apoptosis.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2797)
  AUTHORS   Pinto,R., Vagbo,C.B., Jakobsson,M.E., Kim,Y., Baltissen,M.P.,
            O'Donohue,M.F., Guzman,U.H., Malecki,J.M., Wu,J., Kirpekar,F.,
            Olsen,J.V., Gleizes,P.E., Vermeulen,M., Leidel,S.A., Slupphaug,G.
            and Falnes,P.O.
  TITLE     The human methyltransferase ZCCHC4 catalyses N6-methyladenosine
            modification of 28S ribosomal RNA
  JOURNAL   Nucleic Acids Res 48 (2), 830-846 (2020)
   PUBMED   31799605
  REMARK    GeneRIF: In summary, we establish ZCCHC4 as the enzyme responsible
            for m6A modification of human 28S rRNA, and demonstrate its
            functional significance in mRNA translation.
REFERENCE   5  (bases 1 to 2797)
  AUTHORS   Ren,W., Lu,J., Huang,M., Gao,L., Li,D., Wang,G.G. and Song,J.
  TITLE     Structure and regulation of ZCCHC4 in m6A-methylation of 28S rRNA
  JOURNAL   Nat Commun 10 (1), 5042 (2019)
   PUBMED   31695039
  REMARK    GeneRIF: 3.1 A-resolution crystal structure of human CCHC zinc
            finger-containing protein ZCCHC4, a 28S rRNA-specific m(6)A
            methyltransferase, bound to S-adenosyl-L-homocysteine. Mutational
            and enzymatic analyses further substantiate the molecular basis for
            ZCCHC4-RNA recognition and a role of the stem-loop structure within
            substrate in governing the substrate specificity.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2797)
  AUTHORS   van Tran,N., Ernst,F.G.M., Hawley,B.R., Zorbas,C., Ulryck,N.,
            Hackert,P., Bohnsack,K.E., Bohnsack,M.T., Jaffrey,S.R., Graille,M.
            and Lafontaine,D.L.J.
  TITLE     The human 18S rRNA m6A methyltransferase METTL5 is stabilized by
            TRMT112
  JOURNAL   Nucleic Acids Res 47 (15), 7719-7733 (2019)
   PUBMED   31328227
REFERENCE   7  (bases 1 to 2797)
  AUTHORS   Ma,H., Wang,X., Cai,J., Dai,Q., Natchiar,S.K., Lv,R., Chen,K.,
            Lu,Z., Chen,H., Shi,Y.G., Lan,F., Fan,J., Klaholz,B.P., Pan,T.,
            Shi,Y. and He,C.
  TITLE     N6-Methyladenosine methyltransferase ZCCHC4 mediates ribosomal RNA
            methylation
  JOURNAL   Nat Chem Biol 15 (1), 88-94 (2019)
   PUBMED   30531910
  REMARK    GeneRIF: ZCCHC4 protein is overexpressed in hepatocellular
            carcinoma tumors.ZCCHC4 is an m6A RNA methyltransferase.
            Erratum:[Nat Chem Biol. 2019 May;15(5):549. doi:
            10.1038/s41589-019-0233-6.. PMID: 30737498]
REFERENCE   8  (bases 1 to 2797)
  AUTHORS   Albrecht,M. and Lengauer,T.
  TITLE     Novel Sm-like proteins with long C-terminal tails and associated
            methyltransferases
  JOURNAL   FEBS Lett 569 (1-3), 18-26 (2004)
   PUBMED   15225602
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BG719159.1, AY629351.1 and AK026677.1.
            
            On Nov 23, 2018 this sequence version replaced NM_024936.2.
            
            Transcript Variant: Transcript Variant: This variant (1) represents
            the longer transcript and encodes the longer isoform (1).
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1803614.92240.1, SRR1803617.98.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000302874.9/ ENSP00000303468.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-649               BG719159.1         6-654
            650-2190            AY629351.1         643-2183
            2191-2797           AK026677.1         1460-2066
FEATURES             Location/Qualifiers
     source          1..2797
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="4"
                     /map="4p15.2"
     gene            1..2797
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /note="zinc finger CCHC-type containing 4"
                     /db_xref="GeneID:29063"
                     /db_xref="HGNC:HGNC:22917"
                     /db_xref="MIM:611792"
     exon            1..163
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     CDS             37..1578
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /note="isoform 1 is encoded by transcript variant 1; zinc
                     finger CCHC domain-containing protein 4; DHHC
                     domain-containing zinc finger protein; rRNA
                     N6-adenosine-methyltransferase ZCCHC4; zinc finger,
                     GRF-type containing 4; zinc finger, CCHC domain containing
                     4; rRNA N(6)-adenosine-methyltransferase ZCCHC4"
                     /codon_start=1
                     /product="rRNA N(6)-adenosine-methyltransferase ZCCHC4
                     isoform 1"
                     /protein_id="NP_079212.2"
                     /db_xref="CCDS:CCDS43218.1"
                     /db_xref="GeneID:29063"
                     /db_xref="HGNC:HGNC:22917"
                     /db_xref="MIM:611792"
                     /translation="MAASRNGFEAVEAEGSAGCRGSSGMEVVLPLDPAVPAPLCPHGP
                     TLLFVKVTQGKEETRRFYACSACRDRKDCNFFQWEDEKLSGARLAAREAHNRRCQPPL
                     SRTQCVERYLKFIELPLTQRKFCQTCQQLLLPDDWGQHSEHQVLGNVSITQLRRPSQL
                     LYPLENKKTNAQYLFADRSCQFLVDLLSALGFRRVLCVGTPRLHELIKLTASGDKKSN
                     IKSLLLDIDFRYSQFYMEDSFCHYNMFNHHFFDGKTALEVCRAFLQEDKGEGIIMVTD
                     PPFGGLVEPLAITFKKLIAMWKEGQSQDDSHKELPIFWIFPYFFESRICQFFPSFQML
                     DYQVDYDNHALYKHGKTGRKQSPVRIFTNIPPNKIILPTEEGYRFCSPCQRYVSLENQ
                     HCELCNSCTSKDGRKWNHCFLCKKCVKPSWIHCSICNHCAVPDHSCEGPKHGCFICGE
                     LDHKRSTCPNIATSKRANKAVRKQKQRKSNKMKMETTKGQSMNHTSATRRKKRRERAH
                     QYLGS"
     exon            164..282
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            283..365
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            366..641
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            642..722
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            723..795
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            796..946
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            947..1047
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            1048..1169
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            1170..1245
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            1246..1297
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            1298..1442
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     exon            1443..2797
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2436..2441
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /note="hexamer: ATTAAA"
     polyA_site      2458
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /note="major polyA site"
     regulatory      2777..2782
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
                     /note="hexamer: ATTAAA"
     polyA_site      2797
                     /gene="ZCCHC4"
                     /gene_synonym="HSPC052; ZGRF4"
ORIGIN      
        1 gtttcgtact gaggctttcg ggacggcggc gggaagatgg cggcctccag gaatgggttt
       61 gaagccgtgg aggcagaggg cagcgcaggg tgccggggaa gctcgggaat ggaggtggtg
      121 cttcctttgg atcctgccgt ccccgccccg ctgtgccctc acggacccac tcttctgttt
      181 gtaaaggtga cccaagggaa agaagaaact cggaggtttt atgcctgttc agcctgtaga
      241 gatagaaaag actgtaattt ttttcagtgg gaagatgaaa agttgtcagg agctagactt
      301 gctgcccgag aagctcataa ccgaagatgt cagcctcccc tgtcccgaac gcagtgtgtg
      361 gaaaggtact tgaagtttat tgagttgccc ttgactcaga gaaagttttg tcaaacatgt
      421 cagcagttgt tgttaccaga tgactggggg caacatagtg agcatcaggt tctgggtaat
      481 gtgtccatta cccagttaag aaggcccagt caactccttt atccactgga aaacaagaag
      541 acaaatgccc agtatctgtt tgctgatcgg agctgtcagt tcttggtaga cttactttct
      601 gccctcggat tcagaagagt actgtgtgtt ggaacaccaa ggttgcatga gctgatcaag
      661 ttgacagcat caggtgacaa gaagtctaac attaaaagcc ttttattgga tattgatttt
      721 cggtattcac agttttatat ggaagatagc ttttgccatt ataatatgtt taaccatcat
      781 ttctttgatg gaaagactgc ccttgaagta tgcagagcat ttttacagga agataaaggc
      841 gaaggaatca ttatggtgac ggatcctccg tttggtggct tggttgaacc tctggctatt
      901 acattcaaga agttaattgc tatgtggaaa gaaggtcaaa gccaagatga cagtcacaaa
      961 gaactaccca ttttctggat tttcccctat ttttttgaat cccgaatttg tcagtttttt
     1021 ccaagcttcc agatgctgga ttaccaggta gattatgata atcatgcact ttataaacac
     1081 ggaaagacag gtcgaaaaca gtctcccgtg cgtattttca ccaacattcc gcccaacaaa
     1141 ataatccttc ctactgaaga agggtacaga ttttgctctc cgtgtcaacg gtatgtttct
     1201 ctagagaatc aacactgtga gctctgtaat tcttgcacat ccaaggatgg caggaaatgg
     1261 aaccattgct ttctctgtaa aaagtgtgta aagccttcct ggatccactg tagcatctgc
     1321 aatcactgtg ctgttccaga tcattcttgt gagggcccca aacatggctg ctttatttgt
     1381 ggtgaactgg atcataaacg cagtacttgt cctaacattg ctacatctaa gagagctaac
     1441 aaagctgtca gaaagcagaa gcaaagaaaa agtaataaga tgaaaatgga gaccacgaaa
     1501 ggacaatcca tgaatcatac atctgctaca aggagaaaga aaaggaggga aagagcccat
     1561 caatatcttg gctcttaaat gtccagtgac tggagaataa gaaagattta tggtccaacc
     1621 tttgatgcca ttttctgaaa gtgccacact ggacttaaat tcagctgctt ccagaggtgt
     1681 gcacctttct gagctagata acaggcaggt ggcatttgct ggtttacagt cccttatctg
     1741 cctctctgga gacatgggga gttgttccat cttcagccag tttactagtt ctttcagcat
     1801 tcatttttcc tcactttaag tctctcccag tcacattgtt ctatttttat gttttcattt
     1861 tttttgagat ggagtcttgc tctgtctccc aggctagagt gcaatggcac aacctcagct
     1921 cactgcaacc tctgcctccc gggttcaagc aattctcctg ccttagcctc ctgagtagct
     1981 ggaattatag gcacatgcca ccacgactgg ctaatttttg tatttttagt agagacgggg
     2041 tttcaccatg ttggccaggc tggtctcgaa ctcctggcct caagtgattt gcctgccttg
     2101 gcctcccaaa gtgctgggat tacaggcatg agccacctca cccagctccg gtcacattat
     2161 tctagccttt ttatccaaaa aatgggcaga ccattctttt gcagaagatg tcagaagaaa
     2221 atgaaagtga aaacctatgc agtttgttta ccgtgaacat aaaagtatgt taatttaaat
     2281 aggaaaatat tttatgttaa atatgaaaca atagtttaaa ccccacttga aaagtatagc
     2341 gtacaattat ttttagactg aatttgaaga tgatggaaag ggtttttaca aaggcactgt
     2401 ttagatatac agattataat tataattaca ttattattaa atatttattc ttcaagtact
     2461 ttttgcagtt gtcctctgac ggtctagaat cacttaaatg cttgttgaat gagtgagatg
     2521 tttagaacta cgacttgctc tgtcattcca gtgtcgttta acctatgcag taagattctg
     2581 tctttgtaaa agtagttcgt agcagaagcc aggatagttt ggtaattaaa cgcccaaact
     2641 aaactcctca ttcctaccct taatatttcc tggctgtatg atcttggcca ggtcactctc
     2701 taaaagcccc ggtttcttca ttattatcat tattataatg gggagaataa cagctatacc
     2761 tgaggtttgt tttgtgatta aattaaatga gacccaa
//
