LOCUS       NM_001101013            1957 bp    mRNA    linear   ROD 05-JUL-2023
DEFINITION  Rattus norvegicus autophagy related 4D, cysteine peptidase (Atg4d),
            mRNA.
ACCESSION   NM_001101013 XM_001071698
VERSION     NM_001101013.2
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 1957)
  AUTHORS   Shi G, Zhang Z, Ma S, Li Y, Du S, Chu Y, Li Y, Tang X, Yang Y, Chen
            Z, Wang Z and Wu H.
  TITLE     Hepatic interferon regulatory factor 8 expression mediates liver
            ischemia/reperfusion injury in mice
  JOURNAL   Biochem Pharmacol 192, 114728 (2021)
   PUBMED   34400126
REFERENCE   2  (bases 1 to 1957)
  AUTHORS   Li M, Hou Y, Wang J, Chen X, Shao ZM and Yin XM.
  TITLE     Kinetics comparisons of mammalian Atg4 homologues indicate
            selective preferences toward diverse Atg8 substrates
  JOURNAL   J Biol Chem 286 (9), 7327-7338 (2011)
   PUBMED   21177865
REFERENCE   3  (bases 1 to 1957)
  AUTHORS   Tanida I, Ueno T and Kominami E.
  TITLE     LC3 conjugation system in mammalian autophagy
  JOURNAL   Int J Biochem Cell Biol 36 (12), 2503-2518 (2004)
   PUBMED   15325588
  REMARK    Review article
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            DY318309.1, BC168141.1 and BG371460.1.
            
            On Oct 29, 2008 this sequence version replaced NM_001101013.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC168141.1, SRR8487226.175331.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMD00132261, SAMD00132262
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            gene product(s) localized to mito. :: inferred from homology
            RefSeq Select criteria             :: based on conservation,
                                                  expression, longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-278               DY318309.1         1-278
            279-1934            BC168141.1         1-1656
            1935-1957           BG371460.1         1-23                c
FEATURES             Location/Qualifiers
     source          1..1957
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="Sprague-Dawley"
                     /db_xref="taxon:10116"
                     /chromosome="8"
                     /map="8q13"
     gene            1..1957
                     /gene="Atg4d"
                     /note="autophagy related 4D, cysteine peptidase"
                     /db_xref="GeneID:686505"
                     /db_xref="RGD:1596392"
     exon            1..421
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
     CDS             187..1608
                     /gene="Atg4d"
                     /note="autophagy-related 4D; ATG4 autophagy related 4
                     homolog D"
                     /codon_start=1
                     /product="cysteine protease ATG4D"
                     /protein_id="NP_001094483.2"
                     /db_xref="GeneID:686505"
                     /db_xref="RGD:1596392"
                     /translation="MNSVSPAAAQYRSGSPEDARRPDCRRPRGQTRIPDPSNLGPSGS
                     GVAALGSTGTDPAEPDEVDKFKTKFLTAWNNVKYGWAVKSRTSFSKISSVHLCGRCYH
                     FEGEGDIQRFQRDFVSRLWLTYRRDFPPLAGSLTSDCGWGCMLRSGQMMLAQGLLLHF
                     LPRDWRWVEGTGLASSEMPGPASPSRYRGPGRRGPLRCAQGALEMEPDRWHRRIVSWF
                     ADHPQAPFGLHRLVELGQSSGKKAGDWYGPSVVAHILRKAVESCSEVTRLVVYVSQDC
                     TVYKADVARLVSWPDPTAEWKSVVILVPVRLGGETLNPVYVPCVKELLRSELCLGIMG
                     GKPRHSLYFIGYQDDFLLYLDPHYCQPTVDVNQANFPLESFHCTSPRKMAFAKMDPSC
                     TVGFYAGNRKEFETLCSELMRILSSSSVTERYPMFTVAEGHAQDHSLDALCTQLSQPT
                     LRLPCTGRLLKAKRPSSEDFVFL"
     exon            422..505
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
     exon            506..676
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
     exon            677..953
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
     exon            954..1018
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1019..1149
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1150..1228
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1229..1305
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1306..1425
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
     exon            1426..1939
                     /gene="Atg4d"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 ccgggtgctt tgggccacca agatggcgct ggctgtggta acccgggtac ccgctgcggc
       61 tagagccgga cccgggagcc cagctctggg tatagagtag tgctcttctg gctgcggggc
      121 tgcccctgag cgttcgcagt tccccggacc tcggggacac ctgcgtcctt cctccccggc
      181 gcgtccatga actccgtgtc gccggctgcg gcgcagtacc gcagcgggag cccggaggac
      241 gcgcgccggc ccgattgtcg ccggccgagg ggacaaaccc ggatcccgga tcccagcaac
      301 cttggacctt cggggtctgg cgtggcagct ctcggctcaa ctggaactga ccccgccgag
      361 cctgacgagg tggacaagtt caaaaccaag ttcctgacag cttggaacaa cgtcaagtat
      421 ggttgggcag ttaaaagccg gaccagcttc agcaagatct ccagtgttca tctctgcggg
      481 cgatgctacc atttcgaggg agagggtgac atccagcggt ttcaaaggga ctttgtatct
      541 cgactatggc ttacatatcg ccgggacttc ccacccctag ctgggagcct gacctcagac
      601 tgtggctggg gatgtatgtt acgaagtggt cagatgatgc tggcccaggg cctgctcctg
      661 cattttctgc ctagagactg gaggtgggtg gagggcacag gattggcctc ctctgagatg
      721 ccagggccag cctctcccag tcgataccga gggcctggtc gccgtggtcc tctgcgatgc
      781 gcccagggtg cactggagat ggaaccggat cgctggcacc ggcggattgt ttcctggttt
      841 gctgatcatc ctcaggcccc cttcggtcta catcgcctag tggaacttgg gcagagctct
      901 ggcaagaagg caggagactg gtatggaccc tctgtggtgg cacacatcct caggaaagca
      961 gtggagagct gctcagaagt cacccgcctg gtggtgtacg tctctcagga ctgcacagtg
     1021 tacaaggcag atgtggcacg cctggtgtcc tggccagatc ccacagctga gtggaagtct
     1081 gttgtcatcc tggtgcctgt acgactgggt ggggagactc ttaaccctgt gtatgtgccc
     1141 tgtgtgaagg agcttctgcg ctcagaactc tgcctgggca ttatgggggg caaacctcga
     1201 cattcactgt acttcattgg ctatcaggat gactttctgc tctacctgga tccccactac
     1261 tgccagccca cagtggatgt caaccaggcc aacttcccac tggagtcctt tcactgcacc
     1321 tcgccccgca agatggcctt tgccaagatg gaccccagct gtaccgtggg gttctatgct
     1381 gggaacagga aggagtttga gaccctctgc tcggagctga tgaggatcct cagctcctcc
     1441 tcagtcacgg aacgttaccc catgttcaca gtggctgagg gccatgctca ggaccacagc
     1501 ctggatgccc tctgcaccca gctctcccag cccacactgc gactaccttg cacaggacgc
     1561 ctactcaagg ccaaaaggcc cagctctgag gactttgtgt ttttataatg ggaagggatg
     1621 ggaaagatgc cagactattt atttttttat ttatgtcatg tcaggtatgg gatctggaac
     1681 tccagaggtg gtgctggacc cctgtcctca tgtccccgat cctccccaac acagctgaga
     1741 cctatctagg cccccagctt ggggttgtgc cctttcgagt cctcaccccc agctgcccct
     1801 gactcctcag gagccgggga tggagtgggc tccggggcac tcactcaggg cctgattcaa
     1861 gttctgtagc ctgcgctgga tgactgggag gactgactga ctgtcagtgg aggctgataa
     1921 acatgcagac ttgagtgtga aaaaaaaaaa aaaaaaa
//
