LOCUS       NM_174875               2126 bp    mRNA    linear   ROD 09-JUN-2024
DEFINITION  Mus musculus autophagy related 4A, cysteine peptidase (Atg4a),
            transcript variant 1, mRNA.
ACCESSION   NM_174875 XM_979883 XM_979940 XM_984043 XM_984078
VERSION     NM_174875.5
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 2126)
  AUTHORS   Li,H., Li,C., Zhai,W., Zhang,X., Li,L., Wu,B., Yu,B., Zhang,P.,
            Li,J., Cui,C.P. and Zhang,L.
  TITLE     Destabilization of TP53 by USP10 is essential for neonatal
            autophagy and survival
  JOURNAL   Cell Rep 41 (1), 111435 (2022)
   PUBMED   36198274
REFERENCE   2  (bases 1 to 2126)
  AUTHORS   Li,M., Fu,Y., Yang,Z. and Yin,X.M.
  TITLE     Measurement of the Activity of the Atg4 Cysteine Proteases
  JOURNAL   Methods Enzymol 587, 207-225 (2017)
   PUBMED   28253956
  REMARK    Review article
REFERENCE   3  (bases 1 to 2126)
  AUTHORS   Zhang,L., Li,J., Ouyang,L., Liu,B. and Cheng,Y.
  TITLE     Unraveling the roles of Atg4 proteases from autophagy modulation to
            targeted cancer therapy
  JOURNAL   Cancer Lett 373 (1), 19-26 (2016)
   PUBMED   26805760
  REMARK    Review article
REFERENCE   4  (bases 1 to 2126)
  AUTHORS   Fernandez,A.F. and Lopez-Otin,C.
  TITLE     The functional and pathologic relevance of autophagy proteases
  JOURNAL   J Clin Invest 125 (1), 33-41 (2015)
   PUBMED   25654548
  REMARK    Review article
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CJ057919.1, BY287162.1, BB638045.1, CO425906.1 and AK041379.1.
            
            On Apr 13, 2020 this sequence version replaced NM_174875.4.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK162404.1, AK041379.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849380
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-10                CJ057919.1         2-11
            11-65               BY287162.1         2-56
            66-349              BB638045.1         55-338
            350-737             CO425906.1         300-687
            738-2126            AK041379.1         727-2115
FEATURES             Location/Qualifiers
     source          1..2126
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="X"
                     /map="X 61.67 cM"
     gene            1..2126
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /note="autophagy related 4A, cysteine peptidase"
                     /db_xref="GeneID:666468"
                     /db_xref="MGI:MGI:2147903"
     exon            1..65
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     CDS             56..1246
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /EC_number="3.4.22.-"
                     /note="isoform 1 is encoded by transcript variant 1; APG4
                     (ATG4) autophagy-related homolog A; cysteine protease
                     ATG4A; autophagy-related cysteine endopeptidase 2;
                     autophagy 4 homolog A; cysteine protease APG4A;
                     autophagy-related protein 4 homolog A; autophagin 2;
                     AUT-like 2, cysteine endopeptidase; autophagy-related 4A"
                     /codon_start=1
                     /product="cysteine protease ATG4A isoform 1"
                     /protein_id="NP_777364.3"
                     /db_xref="CCDS:CCDS85810.1"
                     /db_xref="GeneID:666468"
                     /db_xref="MGI:MGI:2147903"
                     /translation="MESVMSKYENQILIFPDYLEEFPDTDELVWILGKQHPLKTEKSK
                     LLSDISARLWFTYRRKFSPIGGTGPSSDAGWGCMLRCGQMMLAQALICRHLGRDWNWE
                     RQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMGVGEGKSIGEWFGPNTVAQVIKKLAL
                     FDEWNSLAVYVSMDNTVVIEDIKKMCCVLPVGAADPAGDFLTASNQSRDTSVPCSAWK
                     PLLLIVPLRLGINQINPVYVEAFKECFKMPQSLGALGGKPNNAYYFIGFLGDELIFLD
                     PHTTQTFVDIEESGLVDDQTFHCLQSPQRMSILNLDPSVALGFFCKEEKDFDNWCSLV
                     QKEILKENLRMFELVQKHPSHWPPFVPPAKPEVTTTGAEFIESTEQLEDFELEEDFEI
                     LSVG"
     exon            66..176
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            177..248
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            249..347
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            348..449
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            450..522
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            523..602
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            603..781
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            782..860
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            861..1006
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1007..1063
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1064..1172
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1173..2126
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2107..2112
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /note="hexamer: AATAAA"
     polyA_site      2126
                     /gene="Atg4a"
                     /gene_synonym="Apg4a; Atg4al; Autl2"
                     /note="major polyA site"
ORIGIN      
        1 agagaaagcc gtagtcaagt tgccggtgga attggcccag gatgacagct ggagaatgga
       61 gtcagttatg tccaagtatg aaaaccagat tcttattttc cctgactacc tggaagaatt
      121 cccggataca gatgagctgg tatggattct ggggaagcag caccccctta agacagaaaa
      181 atctaagctg ttgtctgata taagtgctcg tctatggttt acatacagaa ggaagttttc
      241 cccgattggg ggaacaggcc cttcatctga tgctggatgg ggatgtatgc tgcgctgtgg
      301 gcagatgatg ctggctcaag ccctcatctg cagacacttg ggaagggatt ggaactggga
      361 gagacaaaaa gaacaaccca aagaatacca aaggatactg cagtgtttcc tagatagaaa
      421 agactgttgc tattcaatcc atcagatggc acaaatgggt gtaggagaag ggaaatcaat
      481 tggcgaatgg tttggaccaa acacagttgc acaggtgata aaaaaactcg ctttatttga
      541 tgaatggaat tccttggctg tttatgtttc catggataac acagtggtca ttgaagatat
      601 caagaaaatg tgctgtgttc ttcctgtggg tgctgctgac ccagctggtg attttctgac
      661 tgcatccaat cagagtagag acacctctgt cccgtgctca gcctggaaac ccctgctgct
      721 cattgtgccc cttcgcctgg gcataaacca aatcaatcct gtgtatgttg aagcattcaa
      781 agagtgtttt aagatgccac agtctttagg ggctttagga ggaaagccaa ataacgccta
      841 ttatttcata ggattcttag gagatgagct catttttttg gaccctcaca caacccagac
      901 ttttgttgac attgaagaga gtggactagt agacgaccag acttttcatt gcctgcagtc
      961 tccacagcgg atgagtatcc tgaacttgga tccttctgtg gccttgggat ttttctgcaa
     1021 agaagagaaa gactttgata attggtgtag ccttgttcag aaggaaattc taaaggagaa
     1081 tttgaggatg tttgaattgg ttcagaagca cccatcacac tggcctccct ttgtacctcc
     1141 agccaagcca gaagtgacaa ccacaggggc agaattcata gagtcgactg aacaactgga
     1201 ggactttgag ctggaggaag attttgaaat tctgagtgta ggctagttag aactcagtga
     1261 ggtggtcttc tgccttccat cgggcatcac aagcacatga aaacttttct ggtcagcaag
     1321 tgcctgatat gcagatagca tacaaactca ataacaatga tgactgagcc agttgtccct
     1381 tgttcagaag caaaacaaaa acagcaaatc aatggcaccg agtcaccctg gaaagacaga
     1441 aaactatgga gtctaggaga agattgagaa tccattgctc cccagctcgt cttacatggc
     1501 gacagcaagt cttcagcaat ggaaacgagg gcatttggaa agcagacagc atcttccatc
     1561 ttgctgcaac tatgggcaga tgagagatgg ttatactata ctactccacc ctttcaggtg
     1621 gggctaaata ctaagaataa atctgttttc ttgttcaaat aataaaataa atgaatcagg
     1681 gagaaatact cttgttaaat tatctgaata tgcagtttac ataattgtaa tttttatcaa
     1741 aatatttgtc aaaatgatgt caaatataca cttcttagtt gtcttccttt tggagaaacc
     1801 tgtttgatag gtcacaatct ccatccttac tgatgctttc attagatgtc accgtatcct
     1861 tcaatccaac catgatcact tgaagcagag atcagcaaac tttttctgta aagataatat
     1921 tttagtcttt gtaggctggg tggcctttgt tgtaactatt ctcctctgta aaagcagtcc
     1981 cagacaatat gcatgtgacc gagcatggct gtactctaat aaaatttgat gtacaaaagc
     2041 aagaggaagg ctggactggc cttaccaatc gctcacttaa agcattgatt tttgtttgaa
     2101 ggtttaaata aattgtttga attata
//
