LOCUS       NM_001323614            4400 bp    mRNA    linear   PRI 07-APR-2024
DEFINITION  Homo sapiens SMG5 nonsense mediated mRNA decay factor (SMG5),
            transcript variant 2, mRNA.
ACCESSION   NM_001323614 XM_011509361
VERSION     NM_001323614.2
KEYWORDS    RefSeq.
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 4400)
  AUTHORS   Yang,L., Wei,J., Ma,X., Cheng,R., Zhang,H. and Jin,T.
  TITLE     Pan-Cancer Analysis of the Prognostic and Immunological Role of
            SMG5: A Biomarker for Cancers
  JOURNAL   Oncology 102 (2), 168-182 (2024)
   PUBMED   37699361
  REMARK    GeneRIF: Pan-Cancer Analysis of the Prognostic and Immunological
            Role of SMG5: A Biomarker for Cancers.
REFERENCE   2  (bases 1 to 4400)
  AUTHORS   Wang,Y., Jin,Q., Zhang,S. and Wang,Y.
  TITLE     Overexpression of TMEM79 combined with SMG5 is related to
            prognosis, tumor immune infiltration and drug sensitivity in
            hepatocellular carcinoma
  JOURNAL   Eur J Med Res 28 (1), 490 (2023)
   PUBMED   37936239
  REMARK    GeneRIF: Overexpression of TMEM79 combined with SMG5 is related to
            prognosis, tumor immune infiltration and drug sensitivity in
            hepatocellular carcinoma.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4400)
  AUTHORS   Boehm,V., Kueckelmann,S., Gerbracht,J.V., Kallabis,S.,
            Britto-Borges,T., Altmuller,J., Kruger,M., Dieterich,C. and
            Gehring,N.H.
  TITLE     SMG5-SMG7 authorize nonsense-mediated mRNA decay by enabling SMG6
            endonucleolytic activity
  JOURNAL   Nat Commun 12 (1), 3965 (2021)
   PUBMED   34172724
  REMARK    GeneRIF: SMG5-SMG7 authorize nonsense-mediated mRNA decay by
            enabling SMG6 endonucleolytic activity.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4400)
  AUTHORS   Nicholson,P., Gkratsou,A., Josi,C., Colombo,M. and Muhlemann,O.
  TITLE     Dissecting the functions of SMG5, SMG7, and PNRC2 in
            nonsense-mediated mRNA decay of human cells
  JOURNAL   RNA 24 (4), 557-573 (2018)
   PUBMED   29348139
  REMARK    GeneRIF: The authors found no evidence for the existence of a
            physical or functional interaction between SMG5 and PNRC2.
REFERENCE   5  (bases 1 to 4400)
  AUTHORS   Jin,Y., Zhang,F., Ma,Z. and Ren,Z.
  TITLE     MicroRNA 433 regulates nonsense-mediated mRNA decay by targeting
            SMG5 mRNA
  JOURNAL   BMC Mol Biol 17 (1), 17 (2016)
   PUBMED   27473591
  REMARK    GeneRIF: This study highlights that miR-433 represses nonsense
            mediated mRNA decay. The miR-433 targets 3'-UTR of SMG5 and
            represses the expression of SMG5, whereas nonsense-mediated mRNA
            decay activity is decreased when SMG5 is decreased.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 4400)
  AUTHORS   Moriarty,T.J., Ward,R.J., Taboski,M.A. and Autexier,C.
  TITLE     An anchor site-type defect in human telomerase that disrupts
            telomere length maintenance and cellular immortalization
  JOURNAL   Mol Biol Cell 16 (7), 3152-3161 (2005)
   PUBMED   15857955
REFERENCE   7  (bases 1 to 4400)
  AUTHORS   Unterholzner,L. and Izaurralde,E.
  TITLE     SMG7 acts as a molecular link between mRNA surveillance and mRNA
            decay
  JOURNAL   Mol Cell 16 (4), 587-596 (2004)
   PUBMED   15546618
REFERENCE   8  (bases 1 to 4400)
  AUTHORS   Ohnishi,T., Yamashita,A., Kashima,I., Schell,T., Anders,K.R.,
            Grimson,A., Hachiya,T., Hentze,M.W., Anderson,P. and Ohno,S.
  TITLE     Phosphorylation of hUPF1 induces formation of mRNA surveillance
            complexes containing hSMG-5 and hSMG-7
  JOURNAL   Mol Cell 12 (5), 1187-1200 (2003)
   PUBMED   14636577
  REMARK    GeneRIF: Data show that phosphorylated hUPF1, the human ortholog of
            UPF1/SMG-2, forms a complex with human orthologs of the
            Caenorhabditis elegans proteins SMG-5 and SMG-7.
REFERENCE   9  (bases 1 to 4400)
  AUTHORS   Snow,B.E., Erdmann,N., Cruickshank,J., Goldman,H., Gill,R.M.,
            Robinson,M.O. and Harrington,L.
  TITLE     Functional conservation of the telomerase protein Est1p in humans
  JOURNAL   Curr Biol 13 (8), 698-704 (2003)
   PUBMED   12699629
REFERENCE   10 (bases 1 to 4400)
  AUTHORS   Reichenbach,P., Hoss,M., Azzalin,C.M., Nabholz,M., Bucher,P. and
            Lingner,J.
  TITLE     A human homolog of yeast Est1 associates with telomerase and uncaps
            chromosome ends when overexpressed
  JOURNAL   Curr Biol 13 (7), 568-574 (2003)
   PUBMED   12676087
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL589685.17 and AL135927.14.
            
            On Aug 13, 2020 this sequence version replaced NM_001323614.1.
            
            Summary: SMG5 is involved in nonsense-mediated mRNA decay (Ohnishi
            et al., 2003 [PubMed 14636577]).[supplied by OMIM, Mar 2008].
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            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 :: SRR1803615.133653.1,
                                           SRR1803613.226320.1 [ECO:0000332]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-219               AL589685.17        8127-8345           c
            220-318             AL589685.17        4456-4554           c
            319-442             AL589685.17        3445-3568           c
            443-599             AL589685.17        2605-2761           c
            600-689             AL135927.14        162285-162374       c
            690-779             AL135927.14        161049-161138       c
            780-858             AL135927.14        160008-160086       c
            859-984             AL135927.14        155978-156103       c
            985-1053            AL135927.14        155803-155871       c
            1054-1262           AL135927.14        155158-155366       c
            1263-1400           AL135927.14        154229-154366       c
            1401-2000           AL135927.14        153469-154068       c
            2001-2176           AL135927.14        151083-151258       c
            2177-2252           AL135927.14        149021-149096       c
            2253-2428           AL135927.14        148139-148314       c
            2429-2488           AL135927.14        141137-141196       c
            2489-2648           AL135927.14        140607-140766       c
            2649-2739           AL135927.14        140102-140192       c
            2740-2814           AL135927.14        139091-139165       c
            2815-2953           AL135927.14        138546-138684       c
            2954-4400           AL135927.14        136912-138358       c
FEATURES             Location/Qualifiers
     source          1..4400
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1q22"
     gene            1..4400
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /note="SMG5 nonsense mediated mRNA decay factor"
                     /db_xref="GeneID:23381"
                     /db_xref="HGNC:HGNC:24644"
                     /db_xref="MIM:610962"
     exon            1..219
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     CDS             146..3037
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /note="isoform 2 is encoded by transcript variant 2; ever
                     shorter telomeres 1B; EST1 telomerase component homolog B;
                     protein SMG5; Est1p-like protein B; LPTS interacting
                     protein; EST1-like protein B; smg-5 homolog, nonsense
                     mediated mRNA decay factor; nonsense-mediated mRNA decay
                     factor SMG5"
                     /codon_start=1
                     /product="nonsense-mediated mRNA decay factor SMG5 isoform
                     2"
                     /protein_id="NP_001310543.1"
                     /db_xref="GeneID:23381"
                     /db_xref="HGNC:HGNC:24644"
                     /db_xref="MIM:610962"
                     /translation="MSQGPPTGESSEPEAKVLHTKRLYRAVVEAVHRLDLILCNKTAY
                     QEVFKPENISLRNKLRELCVKLMFLHPVDYGRKAEELLWRKVYYEVIQLIKTNKKHIH
                     SRSTLECAYRTHLVAGIGFYQHLLLYIQSHYQLELQCCIDWTHVTDPLIGCKKPVSAS
                     GKEMDWAQMACHRCLVYLGDLSRYQNELAGVDTELLAERFYYQALSVAPQIGMPFNQL
                     GTLAGSKYYNVEAMYCYLRCIQSEVSFEGAYGNLKRLYDKAAKMYHQLKKCETRKLSP
                     GKKRCKDIKRLLVNFMYLQSLLQPKSSSVDSELTSLCQSVLEDFNLCLFYLPSSPNLS
                     LASEDEEEYESGYAFLPDLLIFQMVIICLMCVHSLERAGSKQYSAAIAFTLALFSHLV
                     NHVNIRLQAELEEGENPVPAFQSDGTDEPESKEPVEKEEEPDPEPPPVTPQVGEGRKS
                     RKFSRLSCLRRRRHPPKVGDDSDLSEGFESDSSHDSARASEGSDSGSDKSLEGGGTAF
                     DAETDSEMNSQESRSDLEDMEEEEGTRSPTLEPPRGRSEAPDSLNGPLGPSEASIASN
                     LQAMSTQMFQTKRCFRLAPTFSNLLLQPTTNPHTSASHRPCVNGDVDKPSEPASEEGS
                     ESEGSESSGRSCRNERSIQEKLQVLMAEGLLPAVKVFLDWLRTNPDLIIVCAQSSQSL
                     WNRLSVLLNLLPAAGELQESGLALCPEVQDLLEGCELPDLPSSLLLPEDMALRNLPPL
                     RAAHRRFNFDTDRPLLSTLEEAQEEARRNRLMRDMAQLRLQLEVSQLEGSLQQPKAQS
                     AMSPYLVPDTQALCHHLPVIRQLATSGRFIVIIPRTVIDGLDLLKKEHPGARDGIRYL
                     EAEFKKGNRYIRCQKEVGKSFERHKLKRQDADAWTLYKILDSCKQLTLAQGAGEEDPS
                     GMVTIITGLPLDNPSVLSGPMQAALQAAAHASVDIKNVLDFYKQWKEIG"
     exon            220..318
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            319..442
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            443..599
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            600..689
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            690..779
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            780..858
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            859..984
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            985..1053
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            1054..1262
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            1263..1400
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            1401..2000
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            2001..2176
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            2177..2252
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            2253..2428
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            2429..2488
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            2489..2648
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            2649..2739
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            2740..2814
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            2815..2953
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     exon            2954..4400
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4381..4386
                     /regulatory_class="polyA_signal_sequence"
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /note="hexamer: AATAAA"
     polyA_site      4400
                     /gene="SMG5"
                     /gene_synonym="EST1B; LPTS-RP1; LPTSRP1; SMG-5"
                     /note="major polyA site"
ORIGIN      
        1 gtcgcgggca gccgcctcac agcgatggcg gccgagcagg gccggtggcg gcggcggctg
       61 cggctacggc cggagacggc agtgttggcg gtagtggtgg gtggcagggg cctgtgaccg
      121 ggagctgccc ccggacccgg gcaccatgag ccaaggcccc cccacagggg agagcagcga
      181 gcccgaagca aaagtcctcc acactaagcg gctttaccgg gctgtggtgg aggctgtgca
      241 tcgacttgac ctcatccttt gcaacaaaac tgcttatcaa gaagtattca aaccagaaaa
      301 cattagcctg aggaacaagc tgcgtgagct ctgcgtcaag cttatgttcc tgcacccagt
      361 ggactatggg agaaaggctg aggagctgct gtggagaaag gtatactatg aagttatcca
      421 gcttatcaag actaacaaaa agcacatcca cagccggagc actttggaat gtgcctacag
      481 gacgcacctg gttgctggta ttggcttcta ccagcatctc cttctctata tccagtccca
      541 ctaccagctg gaactgcagt gctgcatcga ctggacccat gtcactgacc ccctcatagg
      601 atgcaagaag ccagtgtctg cctcagggaa ggagatggat tgggcacaga tggcatgtca
      661 ccgatgtctg gtgtatctgg gggatttgtc ccgatatcag aatgaattag ctggcgtaga
      721 taccgagctg ctagccgaga gattttacta ccaagccctg tcagtagctc ctcagattgg
      781 aatgcccttc aatcagctgg gcaccctggc aggcagcaag tactataatg tggaagccat
      841 gtattgctac ctgcgctgca tccagtcaga agtgtccttt gagggagcct atgggaacct
      901 caagcggctg tatgacaagg cagccaaaat gtaccaccaa ctgaagaagt gtgagactcg
      961 gaaactgtct cctggcaaaa agcgatgtaa agacattaaa aggttgctag tgaactttat
     1021 gtatctgcaa agcctcctac agcccaaaag cagctccgtg gactcagagc tgacctcact
     1081 ttgccagtca gtcctggagg acttcaacct ctgcctcttc tacctgccct cctcacccaa
     1141 cctcagcctg gccagtgagg atgaggagga gtatgagagt ggatatgctt tcctcccgga
     1201 ccttctcatc tttcaaatgg tcatcatctg ccttatgtgt gtgcacagct tggagagagc
     1261 aggatccaag cagtacagtg cagccattgc cttcaccctg gccctctttt cccacctcgt
     1321 caatcatgtc aacatacggc tgcaggctga gctggaagag ggcgagaatc ccgtcccggc
     1381 attccagagt gatggcacag atgaaccaga gtccaaggaa cctgtggaga aagaggagga
     1441 gccagatcct gagcctcctc ctgtaacacc ccaagtgggt gagggcagaa agagccgtaa
     1501 gttctctcgc ctctcctgtc tccgccgtcg ccgccaccca cccaaagttg gtgatgacag
     1561 tgacctgagt gaaggctttg aatcggactc aagccatgac tcagcccggg ccagtgaggg
     1621 ctcagacagt ggctctgaca agagtcttga aggtggggga acggcctttg atgctgaaac
     1681 agactcggaa atgaatagcc aggagtcccg atcagacttg gaagatatgg aggaagagga
     1741 ggggacacgg tcaccaaccc tggagccccc tcggggcaga tcagaggctc ccgattccct
     1801 caatggccca ctgggcccca gtgaggctag cattgccagc aatctacaag ccatgtccac
     1861 ccagatgttc cagactaagc gctgcttccg actggccccc acctttagca acctgctcct
     1921 ccagcccacc accaaccctc atacctcggc cagccacagg ccttgcgtca atggggatgt
     1981 agacaagcct tcagagccag cctctgagga gggctctgag tcggagggga gtgagtccag
     2041 tggacgctcc tgtcggaatg agcgcagcat ccaggagaag cttcaggtcc tgatggccga
     2101 aggtctgctt cctgctgtga aagtcttcct ggactggctt cggaccaacc ccgacctcat
     2161 catcgtgtgt gcgcagagct ctcaaagtct gtggaaccgc ctgtctgtgt tgctgaatct
     2221 gttgcctgct gctggtgaac tccaggagtc tggcctggcc ttgtgtcctg aggtccaaga
     2281 tcttcttgaa ggttgtgaac tgcctgacct cccctctagc cttctgctcc cagaggacat
     2341 ggctcttcgt aacctgcccc cgctccgagc tgcccacaga cgctttaact ttgacacgga
     2401 tcggcccctg ctcagcacct tagaggaggc acaggaggaa gctcgtcgga acaggctcat
     2461 gagagacatg gctcagctac gacttcagct cgaagtgtct cagctggagg gcagcctgca
     2521 gcagcccaag gcccagtcag ccatgtctcc ctacctcgtc cctgacaccc aggccctctg
     2581 ccaccatctc cctgtcatcc gccaactggc caccagtggc cgcttcattg tcatcatccc
     2641 aaggacagtg atcgatggcc tggatttgct gaagaaggaa cacccagggg cccgggatgg
     2701 gattcggtac ctggaggcag agtttaaaaa aggaaacagg tacattcgct gccagaaaga
     2761 ggtgggaaag agctttgagc ggcataagct gaagaggcag gatgcagatg cctggactct
     2821 ctataagatc ctagacagct gcaaacagct gactctggcc cagggggcag gtgaggagga
     2881 tccgagtggc atggtgacca tcatcacagg ccttccactg gacaacccca gcgtgctttc
     2941 aggccccatg caggcagccc tgcaggccgc tgcccacgcc agtgtggaca tcaagaatgt
     3001 tctggacttc tacaagcagt ggaaggaaat tggttgatac tgacccccag gccctgcagt
     3061 ggggctgact ccagatctct cctgccctcc ctggcagcca ggaccagcac ctgtagtcac
     3121 cccaccacac gcagactcat gcacgcacac aggagggagg cctagctgct cagaggctgc
     3181 agggagggcc caggagccgg ctgggagggt ggggtccctt tgttgccaag acgttaggaa
     3241 agcgaggaaa gtgcttggat taggagagtc ttgtgggccc ctggccagcc ttcctgcctc
     3301 agctcccctg ctgtctccag gggcaggtgg taggcatggg tacctgcatt tcactggaat
     3361 gggttcttgg atctctgagg ggaaggaaca gcaaaagagg cccttcttcc tcacccaaga
     3421 tgcagggtgg ttggggccag gagtttggac cctctaggtc ttgggggaag agctgggtaa
     3481 tacctggtgt ctgagtgatt ctctgcagac ccttcccctc ctcaaggatc acccatcctc
     3541 ctttcagccc cctttatggg gaccaggcag ctctggagcc agccacaggg gctgttagag
     3601 aagcaaggcc tggagtggcc tgcaccgagt agcagggtca gggttcgtgt gctcctcctc
     3661 ctgctgcagg ggctgcacat cccattgccc cacttctgct ttgtgtctcc ctctgtctag
     3721 cttccagggc agggagcagg ccccacctag ggctgcaggc agtctggcct gtgccagcac
     3781 ggtctcctgt gcccaccagc cccacaggtg ctgtgctttg tgctcttggc tgctgtgctg
     3841 ggacagaatg ggatgccagg aagagaagaa agggggtgca gtctgaggcc accacccccc
     3901 ttcctatcta agggagggct gaagacaagg ggccggcatt cagtgggcag cagaaaggag
     3961 aggctccttg aagctgctca gtcagaggcc cccgtccctc cttttgcctt ccgcaggact
     4021 gaagacctga aggggctggc ttttggagtg ttgaggtgaa tatctgggag cagagatcat
     4081 gaatagctca gggcagtgaa tggcgcacca agagcagggc tgtgtgtggg aggctgcagc
     4141 caggattgcc tcagctcctc cccctcaggc tgggaggata gcacaggcta ggggctcggg
     4201 gtggagggtc tcagctctgc tgcccccacc ccagtactag cctagcttcc caagctgtgg
     4261 cttagaggat agttggcttc ctgcctctct cctctaaaat agcaagtctg ggaaatcctg
     4321 gggtgagtgg agtcacccca ctcccagttg ctggcagaga ctgagactaa agcatcactt
     4381 aataaacccc ccaagcccaa
//
