LOCUS       NM_005510               1469 bp    mRNA    linear   PRI 07-FEB-2025
DEFINITION  Homo sapiens decapping exoribonuclease (DXO), transcript variant 2,
            mRNA.
ACCESSION   NM_005510 NM_032419
VERSION     NM_005510.4
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 1469)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   2  (bases 1 to 1469)
  AUTHORS   Grudzien-Nogalska,E., Wu,Y., Jiao,X., Cui,H., Mateyak,M.K.,
            Hart,R.P., Tong,L. and Kiledjian,M.
  TITLE     Structural and mechanistic basis of mammalian Nudt12 RNA deNADding
  JOURNAL   Nat Chem Biol 15 (6), 575-582 (2019)
   PUBMED   31101919
REFERENCE   3  (bases 1 to 1469)
  AUTHORS   Amador-Canizares,Y., Bernier,A., Wilson,J.A. and Sagan,S.M.
  TITLE     miR-122 does not impact recognition of the HCV genome by innate
            sensors of RNA but rather protects the 5' end from the cellular
            pyrophosphatases, DOM3Z and DUSP11
  JOURNAL   Nucleic Acids Res 46 (10), 5139-5158 (2018)
   PUBMED   29672716
  REMARK    GeneRIF: DOM3Z limits both miR-122-dependent and
            miR-122-independent Hepatitis C RNA accumulation.
REFERENCE   4  (bases 1 to 1469)
  AUTHORS   Picard-Jean,F., Brand,C., Tremblay-Letourneau,M., Allaire,A.,
            Beaudoin,M.C., Boudreault,S., Duval,C., Rainville-Sirois,J.,
            Robert,F., Pelletier,J., Geiss,B.J. and Bisaillon,M.
  TITLE     2'-O-methylation of the mRNA cap protects RNAs from decapping and
            degradation by DXO
  JOURNAL   PLoS One 13 (3), e0193804 (2018)
   PUBMED   29601584
  REMARK    GeneRIF: Study showed that DXO is a multifunctional enzyme that
            possesses both decapping and 5'-3' exoribonuclease activities
            toward non-2'-O-methylated RNA transcripts. DXO is directly
            involved in the mRNA quality control mechanism by degrading mRNAs
            with abnormal cap structures.
            Erratum:[PLoS One. 2018 Aug 9;13(8):e0202308. doi:
            10.1371/journal.pone.0202308.. PMID: 30092053]
            Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1469)
  AUTHORS   Jiao,X., Doamekpor,S.K., Bird,J.G., Nickels,B.E., Tong,L.,
            Hart,R.P. and Kiledjian,M.
  TITLE     5' End Nicotinamide Adenine Dinucleotide Cap in Human Cells
            Promotes RNA Decay through DXO-Mediated deNADding
  JOURNAL   Cell 168 (6), 1015-1027 (2017)
   PUBMED   28283058
REFERENCE   6  (bases 1 to 1469)
  AUTHORS   Xie,T., Rowen,L., Aguado,B., Ahearn,M.E., Madan,A., Qin,S.,
            Campbell,R.D. and Hood,L.
  TITLE     Analysis of the gene-dense major histocompatibility complex class
            III region and its comparison to mouse
  JOURNAL   Genome Res 13 (12), 2621-2636 (2003)
   PUBMED   14656967
REFERENCE   7  (bases 1 to 1469)
  AUTHORS   Mungall,A.J., Palmer,S.A., Sims,S.K., Edwards,C.A., Ashurst,J.L.,
            Wilming,L., Jones,M.C., Horton,R., Hunt,S.E., Scott,C.E.,
            Gilbert,J.G., Clamp,M.E., Bethel,G., Milne,S., Ainscough,R.,
            Almeida,J.P., Ambrose,K.D., Andrews,T.D., Ashwell,R.I.,
            Babbage,A.K., Bagguley,C.L., Bailey,J., Banerjee,R., Barker,D.J.,
            Barlow,K.F., Bates,K., Beare,D.M., Beasley,H., Beasley,O.,
            Bird,C.P., Blakey,S., Bray-Allen,S., Brook,J., Brown,A.J.,
            Brown,J.Y., Burford,D.C., Burrill,W., Burton,J., Carder,C.,
            Carter,N.P., Chapman,J.C., Clark,S.Y., Clark,G., Clee,C.M.,
            Clegg,S., Cobley,V., Collier,R.E., Collins,J.E., Colman,L.K.,
            Corby,N.R., Coville,G.J., Culley,K.M., Dhami,P., Davies,J.,
            Dunn,M., Earthrowl,M.E., Ellington,A.E., Evans,K.A., Faulkner,L.,
            Francis,M.D., Frankish,A., Frankland,J., French,L., Garner,P.,
            Garnett,J., Ghori,M.J., Gilby,L.M., Gillson,C.J., Glithero,R.J.,
            Grafham,D.V., Grant,M., Gribble,S., Griffiths,C., Griffiths,M.,
            Hall,R., Halls,K.S., Hammond,S., Harley,J.L., Hart,E.A.,
            Heath,P.D., Heathcott,R., Holmes,S.J., Howden,P.J., Howe,K.L.,
            Howell,G.R., Huckle,E., Humphray,S.J., Humphries,M.D., Hunt,A.R.,
            Johnson,C.M., Joy,A.A., Kay,M., Keenan,S.J., Kimberley,A.M.,
            King,A., Laird,G.K., Langford,C., Lawlor,S., Leongamornlert,D.A.,
            Leversha,M., Lloyd,C.R., Lloyd,D.M., Loveland,J.E., Lovell,J.,
            Martin,S., Mashreghi-Mohammadi,M., Maslen,G.L., Matthews,L.,
            McCann,O.T., McLaren,S.J., McLay,K., McMurray,A., Moore,M.J.,
            Mullikin,J.C., Niblett,D., Nickerson,T., Novik,K.L., Oliver,K.,
            Overton-Larty,E.K., Parker,A., Patel,R., Pearce,A.V., Peck,A.I.,
            Phillimore,B., Phillips,S., Plumb,R.W., Porter,K.M., Ramsey,Y.,
            Ranby,S.A., Rice,C.M., Ross,M.T., Searle,S.M., Sehra,H.K.,
            Sheridan,E., Skuce,C.D., Smith,S., Smith,M., Spraggon,L.,
            Squares,S.L., Steward,C.A., Sycamore,N., Tamlyn-Hall,G., Tester,J.,
            Theaker,A.J., Thomas,D.W., Thorpe,A., Tracey,A., Tromans,A.,
            Tubby,B., Wall,M., Wallis,J.M., West,A.P., White,S.S.,
            Whitehead,S.L., Whittaker,H., Wild,A., Willey,D.J., Wilmer,T.E.,
            Wood,J.M., Wray,P.W., Wyatt,J.C., Young,L., Younger,R.M.,
            Bentley,D.R., Coulson,A., Durbin,R., Hubbard,T., Sulston,J.E.,
            Dunham,I., Rogers,J. and Beck,S.
  TITLE     The DNA sequence and analysis of human chromosome 6
  JOURNAL   Nature 425 (6960), 805-811 (2003)
   PUBMED   14574404
REFERENCE   8  (bases 1 to 1469)
  AUTHORS   Yang,Z. and Yu,C.Y.
  TITLE     Organizations and gene duplications of the human and mouse MHC
            complement gene clusters
  JOURNAL   Exp Clin Immunogenet 17 (1), 1-17 (2000)
   PUBMED   10686478
REFERENCE   9  (bases 1 to 1469)
  AUTHORS   Yang,Z., Shen,L., Dangel,A.W., Wu,L.C. and Yu,C.Y.
  TITLE     Four ubiquitously expressed genes, RD (D6S45)-SKI2W
            (SKIV2L)-DOM3Z-RP1 (D6S60E), are present between complement
            component genes factor B and C4 in the class III region of the HLA
  JOURNAL   Genomics 53 (3), 338-347 (1998)
   PUBMED   9799600
REFERENCE   10 (bases 1 to 1469)
  AUTHORS   Yu,C.Y.
  TITLE     Molecular genetics of the human MHC complement gene cluster
  JOURNAL   Exp Clin Immunogenet 15 (4), 213-230 (1998)
   PUBMED   10072631
  REMARK    Review article
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BC019083.2 and AF059252.1.
            
            On Nov 22, 2018 this sequence version replaced NM_005510.3.
            
            Summary: This gene localizes to the major histocompatibility
            complex (MHC) class III region on chromosome 6. The function of its
            protein product is unknown, but its ubiquitous expression and
            conservation in both simple and complex eukaryotes suggests that
            this may be a housekeeping gene. [provided by RefSeq, Jul 2008].
            
            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 :: SRR5189658.106516.1,
                                           SRR1163658.503308.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000337523.10/ ENSP00000337759.5
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1465              BC019083.2         130-1594
            1466-1469           AF059252.1         1379-1382
FEATURES             Location/Qualifiers
     source          1..1469
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="6"
                     /map="6p21.33"
     gene            1..1469
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /note="decapping exoribonuclease"
                     /db_xref="GeneID:1797"
                     /db_xref="HGNC:HGNC:2992"
                     /db_xref="MIM:605996"
     exon            1..210
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /inference="alignment:Splign:2.1.0"
     exon            211..572
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /inference="alignment:Splign:2.1.0"
     CDS             217..1407
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /note="isoform 2 is encoded by transcript variant 2;
                     protein Dom3Z; decapping and exoribonuclease protein;
                     deNADding enzyme DXO; 5'-3' exoribonuclease DXO;
                     NAD-capped RNA hydrolase DXO"
                     /codon_start=1
                     /product="decapping and exoribonuclease protein isoform 2"
                     /protein_id="NP_005501.2"
                     /db_xref="CCDS:CCDS4732.1"
                     /db_xref="GeneID:1797"
                     /db_xref="HGNC:HGNC:2992"
                     /db_xref="MIM:605996"
                     /translation="MDPRGTKRGAEKTEVAEPRNKLPRPAPSLPTDPALYSGPFPFYR
                     RPSELGCFSLDAQRQYHGDARALRYYSPPPTNGPGPNFDLRDGYPDRYQPRDEEVQER
                     LDHLLCWLLEHRGRLEGGPGWLAEAIVTWRGHLTKLLTTPYERQEGWQLAASRFQGTL
                     YLSEVETPNARAQRLARPPLLRELMYMGYKFEQYMCADKPGSSPDPSGEVNTNVAFCS
                     VLRSRLGSHPLLFSGEVDCTDPQAPSTQPPTCYVELKTSKEMHSPGQWRSFYRHKLLK
                     WWAQSFLPGVPNVVAGFRNPDGFVSSLKTFPTMKMFEYVRNDRDGWNPSVCMNFCAAF
                     LSFAQSTVVQDDPRLVHLFSWEPGGPVTVSVHQDAPYAFLPIWYVEAMTQDLPSPPKT
                     PSPK"
     exon            573..808
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /inference="alignment:Splign:2.1.0"
     exon            809..1028
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /inference="alignment:Splign:2.1.0"
     exon            1029..1164
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /inference="alignment:Splign:2.1.0"
     exon            1165..1259
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /inference="alignment:Splign:2.1.0"
     exon            1260..1469
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1449..1454
                     /regulatory_class="polyA_signal_sequence"
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /note="hexamer: AATAAA"
     polyA_site      1469
                     /gene="DXO"
                     /gene_synonym="DOM3L; DOM3Z; NG6; RAI1"
                     /note="major polyA site"
ORIGIN      
        1 gttggcggcg tggaggggcg ccggtggcca cgttggtgtc aacctccttc gtgaagctca
       61 cacctccccc gccccgggag gggtttgccc gccactgtcg ctgaatgatt gcatcatcga
      121 aagcagaaaa ccacttttgc atccttcggc ctctggcgtg cctgccatga cgtcatagct
      181 ctgcggaggt ggaagttggg gagctttgag gacctcatgg atcccagggg gaccaagaga
      241 ggagctgaga agacagaggt agctgagcct cggaacaaac tacctcgtcc agcaccttct
      301 ctgcccacag accctgccct ctactctggg ccctttcctt tctaccggcg cccttcggaa
      361 ctgggctgct tctccctgga tgctcaacgc cagtaccatg gagatgcccg agccctgcgc
      421 tactatagcc caccccccac taacggtcca ggccccaact ttgacctcag agacggatac
      481 ccggatcgat accagccccg ggacgaggag gtccaggaaa ggctggacca cctgctgtgc
      541 tggctcctgg aacaccgagg ccggttggag gggggtccag gctggctggc agaggccata
      601 gtgacgtggc gggggcacct gacaaaactg ctgacgacac cgtatgagcg gcaggagggc
      661 tggcagctgg cagcctcccg gttccaggga acactatacc tgagtgaagt ggagacaccg
      721 aacgctcggg cccagaggct tgctcggcca ccgctcctcc gggagcttat gtacatggga
      781 tacaaatttg agcagtacat gtgtgcagac aaacctggaa gctccccaga cccctctggg
      841 gaggttaaca ccaacgtggc cttctgctct gtgctacgca gccgcctggg aagccaccct
      901 ctgctcttct caggggaggt agactgcaca gacccccaag ccccatccac acagccccca
      961 acctgctatg tggagctcaa gacctccaag gagatgcaca gccctggcca atggaggagt
     1021 ttctacagac acaagctcct gaaatggtgg gctcagtcat tcctcccagg ggtcccgaat
     1081 gttgttgctg gcttccgtaa cccagacggt tttgtctctt ccctcaagac ctttcctacc
     1141 atgaagatgt ttgaatatgt caggaatgac cgtgacggct ggaatccctc tgtgtgcatg
     1201 aacttctgtg ccgccttcct tagctttgcc cagagcacgg ttgtccagga tgaccccagg
     1261 ctcgttcatc tcttctcttg ggagcctggc ggcccagtca ccgtgtctgt acaccaagat
     1321 gcaccttacg ccttcctgcc catatggtat gtggaagcta tgactcagga cctcccatca
     1381 ccccccaaga ctccctctcc caaatagtaa tgctttagag ggaggcagtc atatctctgt
     1441 gtgcagataa taaaagcata tttctaaga
//
