LOCUS       NM_174874               3169 bp    mRNA    linear   ROD 12-FEB-2025
DEFINITION  Mus musculus autophagy related 4B, cysteine peptidase (Atg4b),
            transcript variant 1, mRNA.
ACCESSION   NM_174874
VERSION     NM_174874.4
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 3169)
  AUTHORS   Torres,P., Rico-Rios,S., Ceron-Codorniu,M., Santacreu-Vilaseca,M.,
            Seoane-Miraz,D., Jad,Y., Ayala,V., Marino,G., Beltran,M.,
            Miralles,M.P., Andres-Benito,P., Fernandez-Irigoyen,J.,
            Santamaria,E., Lopez-Otin,C., Soler,R.M., Povedano,M., Ferrer,I.,
            Pamplona,R., Wood,M.J.A., Varela,M.A. and Portero-Otin,M.
  TITLE     TDP-43 regulates LC3ylation in neural tissue through ATG4B cryptic
            splicing inhibition
  JOURNAL   Acta Neuropathol 148 (1), 45 (2024)
   PUBMED   39305312
  REMARK    GeneRIF: TDP-43 regulates LC3ylation in neural tissue through ATG4B
            cryptic splicing inhibition.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3169)
  AUTHORS   Liu,X., Jiang,L., Zeng,H., Gao,L., Guo,S., Chen,C., Liu,X.,
            Zhang,M., Ma,L., Li,Y., Qi,X. and Wu,Y.
  TITLE     Circ-0000953 deficiency exacerbates podocyte injury and autophagy
            disorder by targeting Mir665-3p-Atg4b in diabetic nephropathy
  JOURNAL   Autophagy 20 (5), 1072-1097 (2024)
   PUBMED   38050963
  REMARK    GeneRIF: Circ-0000953 deficiency exacerbates podocyte injury and
            autophagy disorder by targeting Mir665-3p-Atg4b in diabetic
            nephropathy.
REFERENCE   3  (bases 1 to 3169)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   4  (bases 1 to 3169)
  AUTHORS   Zhang,N., Shen,M.Y., Meng,Q.L., Sun,H.P., Fan,F.Y., Yi,H. and
            Yang,Y.J.
  TITLE     FAT1 inhibits AML autophagy and proliferation via downregulating
            ATG4B expression
  JOURNAL   Biochim Biophys Acta Gen Subj 1868 (1), 130519 (2024)
   PUBMED   37952564
  REMARK    GeneRIF: FAT1 inhibits AML autophagy and proliferation via
            downregulating ATG4B expression.
REFERENCE   5  (bases 1 to 3169)
  AUTHORS   Xie,W., Zhang,C., Wang,Z., Chen,H., Gu,T., Zhou,T., Wu,Y., Xia,F.,
            Li,M., Wang,J., Jiao,R., Cui,J. and Jin,S.
  TITLE     ATG4B antagonizes antiviral immunity by GABARAP-directed autophagic
            degradation of TBK1
  JOURNAL   Autophagy 19 (11), 2853-2868 (2023)
   PUBMED   37434364
  REMARK    GeneRIF: ATG4B antagonizes antiviral immunity by GABARAP-directed
            autophagic degradation of TBK1.
REFERENCE   6  (bases 1 to 3169)
  AUTHORS   Marino,G., Fernandez,A.F., Cabrera,S., Lundberg,Y.W.,
            Cabanillas,R., Rodriguez,F., Salvador-Montoliu,N., Vega,J.A.,
            Germana,A., Fueyo,A., Freije,J.M. and Lopez-Otin,C.
  TITLE     Autophagy is essential for mouse sense of balance
  JOURNAL   J Clin Invest 120 (7), 2331-2344 (2010)
   PUBMED   20577052
REFERENCE   7  (bases 1 to 3169)
  AUTHORS   Fujita,N., Hayashi-Nishino,M., Fukumoto,H., Omori,H., Yamamoto,A.,
            Noda,T. and Yoshimori,T.
  TITLE     An Atg4B mutant hampers the lipidation of LC3 paralogues and causes
            defects in autophagosome closure
  JOURNAL   Mol Biol Cell 19 (11), 4651-4659 (2008)
   PUBMED   18768752
  REMARK    GeneRIF: These results show that the lipidation of LC3 paralogues
            is involved in the completion of autophagosome formation in
            mammalian cells.
REFERENCE   8  (bases 1 to 3169)
  AUTHORS   Komatsu,M., Waguri,S., Koike,M., Sou,Y.S., Ueno,T., Hara,T.,
            Mizushima,N., Iwata,J., Ezaki,J., Murata,S., Hamazaki,J.,
            Nishito,Y., Iemura,S., Natsume,T., Yanagawa,T., Uwayama,J.,
            Warabi,E., Yoshida,H., Ishii,T., Kobayashi,A., Yamamoto,M., Yue,Z.,
            Uchiyama,Y., Kominami,E. and Tanaka,K.
  TITLE     Homeostatic levels of p62 control cytoplasmic inclusion body
            formation in autophagy-deficient mice
  JOURNAL   Cell 131 (6), 1149-1163 (2007)
   PUBMED   18083104
REFERENCE   9  (bases 1 to 3169)
  AUTHORS   Hemelaar,J., Lelyveld,V.S., Kessler,B.M. and Ploegh,H.L.
  TITLE     A single protease, Apg4B, is specific for the autophagy-related
            ubiquitin-like proteins GATE-16, MAP1-LC3, GABARAP, and Apg8L
  JOURNAL   J Biol Chem 278 (51), 51841-51850 (2003)
   PUBMED   14530254
  REMARK    GeneRIF: The Apg4B/autophagin-1 protease thus serves as a
            processing/deconjugating enzyme for these four highly divergent
            mammalian Apg8 homologues, GATE-16, MAP1-LC3, GABARAP, and Apg8L.
REFERENCE   10 (bases 1 to 3169)
  AUTHORS   Okazaki,N., Kikuno,R., Ohara,R., Inamoto,S., Koseki,H., Hiraoka,S.,
            Saga,Y., Nagase,T., Ohara,O. and Koga,H.
  TITLE     Prediction of the coding sequences of mouse homologues of KIAA
            gene: III. the complete nucleotide sequences of 500 mouse
            KIAA-homologous cDNAs identified by screening of terminal sequences
            of cDNA clones randomly sampled from size-fractionated libraries
  JOURNAL   DNA Res 10 (4), 167-180 (2003)
   PUBMED   14621295
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC162891.6 and AK031570.1.
            
            On Feb 1, 2019 this sequence version replaced NM_174874.3.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and encodes the longer isoform (1).
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript 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 :: AK031570.1, AK144239.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-128               AC162891.6         69119-69246         c
            129-1847            AK031570.1         2-1720
            1848-1848           AC162891.6         35866-35866         c
            1849-3092           AK031570.1         1722-2965
            3093-3169           AC162891.6         34545-34621         c
FEATURES             Location/Qualifiers
     source          1..3169
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="1"
                     /map="1 47.32 cM"
     gene            1..3169
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /note="autophagy related 4B, cysteine peptidase"
                     /db_xref="GeneID:66615"
                     /db_xref="MGI:MGI:1913865"
     exon            1..150
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     CDS             141..1322
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /note="isoform 1 is encoded by transcript variant 1;
                     cysteine protease involved in autophagy APG4-B; autophagin
                     1; cysteine protease ATG4B; autophagy-related protein 4
                     homolog B; autophagy-related cysteine endopeptidase 1;
                     AUT-like 1, cysteine endopeptidase; APG4 (ATG4)
                     autophagy-related homolog B; autophagy-related 4B"
                     /codon_start=1
                     /product="cysteine protease ATG4B isoform 1"
                     /protein_id="NP_777363.1"
                     /db_xref="CCDS:CCDS15195.1"
                     /db_xref="GeneID:66615"
                     /db_xref="MGI:MGI:1913865"
                     /translation="MDAATLTYDTLRFAEFEDFPETSEPVWILGRKYSIFTEKDEILS
                     DVASRLWFTYRRNFPAIGGTGPTSDTGWGCMLRCGQMIFAQALVCRHLGRDWRWTQRK
                     RQPDSYFNVLNAFLDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVLKKLAVFDT
                     WSSLAVHIAMDNTVVMEEIRRLCRANLPCVGAAALPTDSERHCNGFPAGAEVTNRPSA
                     WRPLVLLIPLRLGLTDINEAYVETLKHCFMMPQSLGVIGGKPNSAHYFIGYVGEELIY
                     LDPHTTQPAVELTDSCFIPDESFHCQHPPSRMGIGELDPSIAVGFFCKTEEDFNDWCQ
                     QVKKLSQLGGALPMFELVEQQPSHLACQDVLNLSLDSSDVERLERFFDSEDEDFEILS
                     L"
     exon            151..252
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            253..324
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            325..423
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            424..525
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            526..598
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            599..678
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            679..872
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            873..951
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            952..1097
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            1098..1154
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            1155..1248
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     exon            1249..3169
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1718..1723
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /note="hexamer: ATTAAA"
     polyA_site      1744
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /note="major polyA site"
     regulatory      2975..2980
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /note="hexamer: AATAAG"
     polyA_site      2997
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /note="major polyA site"
     regulatory      3065..3070
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
                     /note="hexamer: AGTAAA"
     polyA_site      3093
                     /gene="Atg4b"
                     /gene_synonym="2510009N07Rik; Apg4b; Atg4bl; Autl1;
                     MmAPG4B"
ORIGIN      
        1 gcgtgcccac cgccgtacgg cgagatggcg acgcccgcgc ttccgctgcg ccgcgcttgg
       61 ctgccgcggc ttcccgtcgc cgtgtcgcgc agtagtccgt cggagcgacg gcacggtcag
      121 tcggcagccg gacagggaag atggacgcag ccactttgac atatgatact ctccggtttg
      181 ctgaatttga agatttccct gagacctcag agcctgtttg gattctgggc agaaaataca
      241 gcattttcac agagaaggac gaaatcttgt ctgatgttgc atccagactt tggtttacat
      301 acaggagaaa ctttccagct attgggggaa ctggccctac ttcagacaca ggctggggtt
      361 gcatgcttcg gtgtggacag atgatctttg cccaggccct ggtatgccgg cacttaggtc
      421 gagattggag gtggactcag cggaagaggc agcctgacag ctactttaat gtcctcaatg
      481 ctttcctcga caggaaggac agctactatt ccatccatca gatagcgcaa atgggagttg
      541 gcgaaggcaa gtctataggc cagtggtacg ggccgaacac tgttgcccag gtcctcaaga
      601 aacttgctgt attcgacaca tggagttcct tggctgttca catagcaatg gacaacactg
      661 tggtgatgga ggaaatcaga aggttatgca gggccaacct tccctgtgtt ggggcggctg
      721 cacttcctac tgattcagag aggcactgta atgggttccc tgctggagct gaagtcacca
      781 acaggccatc ggcttggaga ccactagtgc ttctcatccc tctccgcctg ggactgacag
      841 acatcaatga ggcctatgtg gagacgctga agcactgttt catgatgccc cagtccctgg
      901 gtgttattgg agggaagccc aacagtgccc actactttat tggctatgtt ggggaggagc
      961 tcatctatct ggacccccac actacacagc ctgcagtgga gctgactgac agctgcttca
     1021 tccccgacga gagcttccac tgccagcacc ctccctctag gatgggcatt ggagagcttg
     1081 acccgtccat tgctgtgggg tttttctgta agacggagga agactttaac gactggtgtc
     1141 agcaagtcaa aaagctatcc cagcttggag gtgccctgcc catgtttgag ctggtggaac
     1201 agcagccttc ccatctggcc tgccaggatg tcctgaacct gtccctagac tcttctgatg
     1261 tagagagact ggagaggttt tttgactctg aggatgaaga ctttgaaatc ttatccctct
     1321 gaaaatcctg gggttggggg atggcctcca tggccctcat tggggtgctt tgagaaccca
     1381 gacctgcctt gggcactcag tgtcaccgca ttccatccac ccagcccatc cctgccaagt
     1441 gctgttcacc tgtgccacct ctgtcccgag ggcctgctct gctcatggac caaggactat
     1501 ggtgcctgga ggccttaatg cttggagtca gactgcctaa accccaacac aaagggcctg
     1561 tccacatgaa gtcgctcatc agaaggccta gtcaggaaga gcagtgggtc aggagcttcc
     1621 agaattctcc actggattct gacactgcca gccctggtca gcacatcagc tttggttctg
     1681 ctttctcctg ggcacctggg tctgtggttt atttggaatt aaagccctgt ttgaagttgt
     1741 ttaacaaaga catgaatttc tggggcactt cccaggtcag tcttagacga tctgcaggtt
     1801 atgtacagag tgacagccac atcatggcct catactgctg ggcggggtga gctttgggct
     1861 gtctcctctg cccagtgtga tttatcaagg gctacctcag tgggaaagca tatggagaga
     1921 atcccaaggc tgctacttgc tttggagaga aagtattctt gtggggcatt tggaaaatcc
     1981 aaagatatca gtgtgcatgg gcacaggatg gacccctgaa ccctggagca actgacaagc
     2041 tcctagggct tctggagttg tggtcctggg attccccatt aggacctcgc tagggaagag
     2101 agaggtttcc tctgtggggt tgatgcgttt catgacacac cgcctgctgc ttttagcgtg
     2161 ccacccagct tccctctggg aggaaaggga agggagcaga gctgctctat gcttgagaca
     2221 ccgtgcccac tggtggtagg gtacacactg ctacttgagc cttcctccat gttctttctc
     2281 ttctcagaaa cccatctggg tcacaggaaa ttgtagatgg tttggggcca aaaaggtaaa
     2341 agtactacag ctttttggtg cacaatagac atttagacag caggtagctc caggcactca
     2401 caagtgaaga gttcagacct ccttggcact catttccata cctgccacct aaccctggct
     2461 ttctgggcct tcaagctttt gatgctctag gtctgctgtc ttagaaaaac acctttcctc
     2521 cccctagata tgagcagagt atggcagtgt ggggaggacc gttcaagagc ctttgctaaa
     2581 agcccttccc aagaactcgc agatgggtga ggccagagct actccagatg cagcagctct
     2641 aagtagccca caaggtagca agagatccct gcctatcaag tgttgaagac atatttattt
     2701 catcttactc tttctctccc atatcttgtc ccttgacttc agatggggtg ggacgggggg
     2761 gggggaaagg ccaggacagt ttccattccc ccggagcttg tttcctgagg ccaggagcta
     2821 ttgtgctgct gtcgcccagg gtctcgctgt aactcctgtt gttggtagta aggggtggac
     2881 atatggaaca ctacaacctg agggaactct cagggcttga gaaaggcttc ctgaggttgt
     2941 tcattcttag tgtagtttgc aattcttaat gataaataag tttcagtaga aaacaaagtc
     3001 ttgtgtgtgt gtgttgattt tttttcccct ccagttatga ttagctttga ttttagtgtt
     3061 aacaagtaaa gacttcctga agttggacaa gcagatcctg ccctgttcct ggccttgctg
     3121 tgtagccaat gtctgttttc cctcatatta aactcatggt cctaaaaaa
//
