LOCUS       NM_001399020            2335 bp    mRNA    linear   ROD 17-SEP-2024
DEFINITION  Rattus norvegicus autophagy related 5 (Atg5), transcript variant 3,
            mRNA.
ACCESSION   NM_001399020 XM_039098912
VERSION     NM_001399020.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 2335)
  AUTHORS   Cai,X., Zhang,P., Yang,Y., Wang,Y., Zhu,H., Li,B., Zeng,H., Hong,L.
            and Shao,L.
  TITLE     MiR-30a-5p Promotes Vein Graft Restenosis by Inhibiting Cell
            Autophagy through Targeting ATG5
  JOURNAL   Curr Med Chem 30 (6), 757-774 (2023)
   PUBMED   35927903
  REMARK    GeneRIF: MiR-30a-5p Promotes Vein Graft Restenosis by Inhibiting
            Cell Autophagy through Targeting ATG5.
REFERENCE   2  (bases 1 to 2335)
  AUTHORS   Tsujimoto,R., Yurube,T., Takeoka,Y., Kanda,Y., Miyazaki,K.,
            Ohnishi,H., Kakiuchi,Y., Miyazaki,S., Zhang,Z., Takada,T.,
            Kuroda,R. and Kakutani,K.
  TITLE     Involvement of autophagy in the maintenance of rat intervertebral
            disc homeostasis: an in-vitro and in-vivo RNA interference study of
            Atg5
  JOURNAL   Osteoarthritis Cartilage 30 (3), 481-493 (2022)
   PUBMED   34958937
  REMARK    GeneRIF: Involvement of autophagy in the maintenance of rat
            intervertebral disc homeostasis: an in-vitro and in-vivo RNA
            interference study of Atg5.
REFERENCE   3  (bases 1 to 2335)
  AUTHORS   Cheng,H., Xu,B., Zhang,L., Wang,Y., Chen,M. and Chen,S.
  TITLE     Bortezomib alleviates antibody-mediated rejection in kidney
            transplantation by facilitating Atg5 expression
  JOURNAL   J Cell Mol Med 25 (23), 10939-10949 (2021)
   PUBMED   34734681
  REMARK    GeneRIF: Bortezomib alleviates antibody-mediated rejection in
            kidney transplantation by facilitating Atg5 expression.
REFERENCE   4  (bases 1 to 2335)
  AUTHORS   Osoro,E.K., Du,X., Liang,D., Lan,X., Farooq,R., Huang,F., Zhu,W.,
            Ren,J., Sadiq,M., Tian,L., Yang,X., Li,D. and Lu,S.
  TITLE     Induction of PDCD4 by albumin in proximal tubule epithelial cells
            potentiates proteinuria-induced dysfunctional autophagy by
            negatively targeting Atg5
  JOURNAL   Biochem Cell Biol 99 (5), 617-628 (2021)
   PUBMED   33831322
  REMARK    GeneRIF: Induction of PDCD4 by albumin in proximal tubule
            epithelial cells potentiates proteinuria-induced dysfunctional
            autophagy by negatively targeting Atg5.
REFERENCE   5  (bases 1 to 2335)
  AUTHORS   El-Derany,M.O. and AbdelHamid,S.G.
  TITLE     Upregulation of miR-96-5p by bone marrow mesenchymal stem cells and
            their exosomes alleviate non-alcoholic steatohepatitis: Emphasis on
            caspase-2 signaling inhibition
  JOURNAL   Biochem Pharmacol 190, 114624 (2021)
   PUBMED   34052187
REFERENCE   6  (bases 1 to 2335)
  AUTHORS   Liu,C.L., Chen,S., Dietrich,D. and Hu,B.R.
  TITLE     Changes in autophagy after traumatic brain injury
  JOURNAL   J Cereb Blood Flow Metab 28 (4), 674-683 (2008)
   PUBMED   18059433
REFERENCE   7  (bases 1 to 2335)
  AUTHORS   Nakai,A., Yamaguchi,O., Takeda,T., Higuchi,Y., Hikoso,S.,
            Taniike,M., Omiya,S., Mizote,I., Matsumura,Y., Asahi,M.,
            Nishida,K., Hori,M., Mizushima,N. and Otsu,K.
  TITLE     The role of autophagy in cardiomyocytes in the basal state and in
            response to hemodynamic stress
  JOURNAL   Nat Med 13 (5), 619-624 (2007)
   PUBMED   17450150
REFERENCE   8  (bases 1 to 2335)
  AUTHORS   Kochl,R., Hu,X.W., Chan,E.Y. and Tooze,S.A.
  TITLE     Microtubules facilitate autophagosome formation and fusion of
            autophagosomes with endosomes
  JOURNAL   Traffic 7 (2), 129-145 (2006)
   PUBMED   16420522
REFERENCE   9  (bases 1 to 2335)
  AUTHORS   Simonsen,A., Birkeland,H.C., Gillooly,D.J., Mizushima,N., Kuma,A.,
            Yoshimori,T., Slagsvold,T., Brech,A. and Stenmark,H.
  TITLE     Alfy, a novel FYVE-domain-containing protein associated with
            protein granules and autophagic membranes
  JOURNAL   J Cell Sci 117 (Pt 18), 4239-4251 (2004)
   PUBMED   15292400
REFERENCE   10 (bases 1 to 2335)
  AUTHORS   Mizushima,N., Yamamoto,A., Hatano,M., Kobayashi,Y., Kabeya,Y.,
            Suzuki,K., Tokuhisa,T., Ohsumi,Y. and Yoshimori,T.
  TITLE     Dissection of autophagosome formation using Apg5-deficient mouse
            embryonic stem cells
  JOURNAL   J Cell Biol 152 (4), 657-668 (2001)
   PUBMED   11266458
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000020.1.
            
            On Dec 29, 2021 this sequence version replaced XM_039098912.1.
            
            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 :: AM087012.1, SRR26360172.2163016.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760383, SAMEA5760386
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-243               JAXUCZ010000020.1  49380835-49381077
            244-408             JAXUCZ010000020.1  49396408-49396572
            409-536             JAXUCZ010000020.1  49399043-49399170
            537-615             JAXUCZ010000020.1  49404780-49404858
            616-778             JAXUCZ010000020.1  49412017-49412179
            779-873             JAXUCZ010000020.1  49432712-49432806
            874-991             JAXUCZ010000020.1  49454447-49454564
            992-2335            JAXUCZ010000020.1  49470483-49471826
FEATURES             Location/Qualifiers
     source          1..2335
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="20"
                     /map="20q13"
     gene            1..2335
                     /gene="Atg5"
                     /note="autophagy related 5"
                     /db_xref="GeneID:365601"
                     /db_xref="RGD:1359580"
     exon            1..243
                     /gene="Atg5"
                     /inference="alignment:Splign:2.1.0"
     exon            244..408
                     /gene="Atg5"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    268..270
                     /gene="Atg5"
                     /note="upstream in-frame stop codon"
     CDS             301..1128
                     /gene="Atg5"
                     /note="isoform 3 is encoded by transcript variant 3;
                     autophagy protein 5; ATG5 autophagy related 5 homolog"
                     /codon_start=1
                     /product="autophagy protein 5 isoform 3"
                     /protein_id="NP_001385949.1"
                     /db_xref="GeneID:365601"
                     /db_xref="RGD:1359580"
                     /translation="

MTDDKDVLRDVWFGRIPTCFTLYQDEITEREAEPYYLLLPRVSYLTLVTDKVKKHFQKVMRQEDVSEIWFEYEGTPLKWHYPIGLLFDLLASSSALPWNITVHFKSFPEKDLLHCPCKDAVEAHFMSCVKEADALKHKSQVINEMQRKDHKQLWMGLQNDRFDQFWTINRKLMEYPPEENGFRYIPFRIYQTTTERPFIQKLFRPVAADGQLHTLGDLLREVCPSAVAPEDGEKKSQVMIHGIEPLLETPLQWLSEHLSYPDNFLHISIVPQPTD"

     misc_feature    301..303
                     /gene="Atg5"
                     /note="N-acetylmethionine.
                     /evidence=ECO:0000250|UniProtKB:Q9H1Y0; propagated from
                     UniProtKB/Swiss-Prot (Q3MQ06.1); acetylation site"
     misc_feature    535..1110
                     /gene="Atg5"
                     /note="Autophagy protein Apg5; Region: APG5; pfam04106"
                     /db_xref="CDD:461175"
     exon            409..536
                     /gene="Atg5"
                     /inference="alignment:Splign:2.1.0"
     exon            537..615
                     /gene="Atg5"
                     /inference="alignment:Splign:2.1.0"
     exon            616..778
                     /gene="Atg5"
                     /inference="alignment:Splign:2.1.0"
     exon            779..873
                     /gene="Atg5"
                     /inference="alignment:Splign:2.1.0"
     exon            874..991
                     /gene="Atg5"
                     /inference="alignment:Splign:2.1.0"
     exon            992..2335
                     /gene="Atg5"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

atctccgggcgccgagggtgactggacttacggtgggctacgggcgctgcggttcgctctggttcggagggcggaagtgcccgctgggctgttttctgacccccggcggcggcgctctgtgcggctgcgcgcgcactgggacttctgctcctgcgcctctgcaggacgctgtgatcccggtagacccaacccgaccgagcgtcttccgcgctgcgggaagccggagcagagccggcacctcggtttggcttggttgaagaaagcacttagcctatatgtactgctctgtccactggaagaatgacagatgacaaagatgtgcttcgagacgtgtggtttggacggattccaacgtgctttactctctatcaggatgagataactgaacgagaagcagagccatactatttgcttttgccaagagtcagctatttgacgctggtaactgacaaagtgaaaaagcactttcagaaggttatgagacaagaagatgttagtgagatttggtttgaatatgaaggcacacccctgaaatggcattatccaattggcctactgttcgatcttcttgcatcaagctcagctctgccttggaacatcacagtacatttcaagagttttccagaaaaggaccttctgcactgtccgtgcaaggatgcagttgaggctcactttatgtcatgtgtgaaggaagctgacgctttaaagcacaaaagtcaggtgatcaacgaaatgcagagaaaagaccacaagcagctctggatgggactgcagaatgacagatttgaccagttttggaccatcaaccggaaactcatggaataccctccagaagaaaatggatttcgttatatcccttttagaatatatcagaccacaactgaacggcctttcattcagaagctgttccgtcctgtggccgcagatggacagctgcatacccttggagatctcctaagagaagtctgtccttccgcagtcgcccctgaagacggagagaagaagagccaggtgatgattcacgggatcgagcccttgctggaaaccccgctgcagtggctgagcgagcatctgagctatccagacaacttccttcacatcagcattgtgccccagccaacagactgaaggccgtgtcctgctcactggatggaaccacccgcagtcaggacaccgaagcatgacacccttgcttcccgtcaggctcagtggaggcaacagaaccccgggctgctgcaagccaaggcggcagaagattccatgggagatagggcaccggcagggctgagtgtgctccaccgctgcgtcagtaaacctcgctgacaggcaggaccacgcagcctctcttctcgggaactgcagtgcgcacgcttttgctcagtgaaaacattggaaatgtgccagttcgtgtctgattaacaaatcagggggtgtttcctaaggtgacggtggtcggaccttcggctggagagtggaaacactggttgaattttcaatagaattagacttaagaaagtaaaagagaaattctgttattaataacttgcagtaatttttttgtaaaagatcaaattacagtaaacccgtctttccttaatgagaatttcctgtttacagtcagtctattggtatgcaaacaatcttgtaactttgataatgaacagtgagagatttttaaataaagcctctaactacgtttgtcatttaataacatacagtctgtcacttttcagggacctcctgaatctcacacagtaagcctctttctactctgtttccagtgctcactggtgtagcaagggtgcagggcataggggaactcgtctcaggagctctcacaggattcattactgtgacttgaaaatctgtcttctagatactaaagtatcaataatactctgtctctgctgtcctgttggccgctgtacacctgtcaaatcatagtatgccaagtatctgtctacagaaactcagtatttcgaagctccggttccttcccagtgtctgattttcctttttcctttttggctcctggattactgtgtcactgtggcccctggcagccagtctttaaagcctgaaggtggcctgtctctagactgcagtagcttttccttatcattaccaaaaaaacatccagaagtgactggaactcctgccacagtaagggaagttcgctgcactctcccgatggctgcttggagactcctgccattgactgtgagctagcttgctgtccatattgaatgtcaacccacctgagtatgctaaaagatgatatcataaaataatggttttagatttaaaaataaaggtgaatgttttcttataaaaa

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