LOCUS       NM_032852               2944 bp    mRNA    linear   PRI 04-APR-2024
DEFINITION  Homo sapiens autophagy related 4C cysteine peptidase (ATG4C),
            transcript variant 1, mRNA.
ACCESSION   NM_032852
VERSION     NM_032852.4
KEYWORDS    RefSeq; MANE Select.
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 2944)
  AUTHORS   Liu,P., Huang,J., Mei,W., Zeng,X., Wang,C., Wen,C. and Xu,J.
  TITLE     Epigallocatechin-3-gallate protects cardiomyocytes from
            hypoxia-reoxygenation damage via raising autophagy related 4C
            expression
  JOURNAL   Bioengineered 12 (2), 9496-9506 (2021)
   PUBMED   34699312
  REMARK    GeneRIF: Epigallocatechin-3-gallate protects cardiomyocytes from
            hypoxia-reoxygenation damage via raising autophagy related 4C
            expression.
REFERENCE   2  (bases 1 to 2944)
  AUTHORS   Qu,Y., Gao,Q., Wu,S., Xu,T., Jiang,D. and Xu,G.
  TITLE     MicroRNA-142-3p inhibits autophagy and promotes intracellular
            survival of Mycobacterium tuberculosis by targeting ATG16L1 and
            ATG4c
  JOURNAL   Int Immunopharmacol 101 (Pt A), 108202 (2021)
   PUBMED   34619495
  REMARK    GeneRIF: MicroRNA-142-3p inhibits autophagy and promotes
            intracellular survival of Mycobacterium tuberculosis by targeting
            ATG16L1 and ATG4c.
REFERENCE   3  (bases 1 to 2944)
  AUTHORS   Nguyen,T.N., Padman,B.S., Zellner,S., Khuu,G., Uoselis,L.,
            Lam,W.K., Skulsuppaisarn,M., Lindblom,R.S.J., Watts,E.M.,
            Behrends,C. and Lazarou,M.
  TITLE     ATG4 family proteins drive phagophore growth independently of the
            LC3/GABARAP lipidation system
  JOURNAL   Mol Cell 81 (9), 2013-2030 (2021)
   PUBMED   33773106
  REMARK    GeneRIF: ATG4 family proteins drive phagophore growth independently
            of the LC3/GABARAP lipidation system.
REFERENCE   4  (bases 1 to 2944)
  AUTHORS   Haenig,C., Atias,N., Taylor,A.K., Mazza,A., Schaefer,M.H., Russ,J.,
            Riechers,S.P., Jain,S., Coughlin,M., Fontaine,J.F., Freibaum,B.D.,
            Brusendorf,L., Zenkner,M., Porras,P., Stroedicke,M., Schnoegl,S.,
            Arnsburg,K., Boeddrich,A., Pigazzini,L., Heutink,P., Taylor,J.P.,
            Kirstein,J., Andrade-Navarro,M.A., Sharan,R. and Wanker,E.E.
  TITLE     Interactome Mapping Provides a Network of Neurodegenerative Disease
            Proteins and Uncovers Widespread Protein Aggregation in Affected
            Brains
  JOURNAL   Cell Rep 32 (7), 108050 (2020)
   PUBMED   32814053
REFERENCE   5  (bases 1 to 2944)
  AUTHORS   Zeng,Y., Chen,M., Ganesh,S., Hu,S. and Chen,H.
  TITLE     Clinicopathological and prognostic significance of caveolin-1 and
            ATG4C expression in the epithelial ovarian cancer
  JOURNAL   PLoS One 15 (5), e0232235 (2020)
   PUBMED   32401768
  REMARK    GeneRIF: CAV1 and ATG4C serve as useful prognostic biomarkers and
            candidate therapeutic targets in EOC
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2944)
  AUTHORS   Lemaitre,R.N., King,I.B., Kabagambe,E.K., Wu,J.H., McKnight,B.,
            Manichaikul,A., Guan,W., Sun,Q., Chasman,D.I., Foy,M., Wang,L.,
            Zhu,J., Siscovick,D.S., Tsai,M.Y., Arnett,D.K., Psaty,B.M.,
            Djousse,L., Chen,Y.D., Tang,W., Weng,L.C., Wu,H., Jensen,M.K.,
            Chu,A.Y., Jacobs,D.R. Jr., Rich,S.S., Mozaffarian,D., Steffen,L.,
            Rimm,E.B., Hu,F.B., Ridker,P.M., Fornage,M. and Friedlander,Y.
  TITLE     Genetic loci associated with circulating levels of very long-chain
            saturated fatty acids
  JOURNAL   J Lipid Res 56 (1), 176-184 (2015)
   PUBMED   25378659
REFERENCE   7  (bases 1 to 2944)
  AUTHORS   Korkmaz,G., le Sage,C., Tekirdag,K.A., Agami,R. and Gozuacik,D.
  TITLE     miR-376b controls starvation and mTOR inhibition-related autophagy
            by targeting ATG4C and BECN1
  JOURNAL   Autophagy 8 (2), 165-176 (2012)
   PUBMED   22248718
  REMARK    GeneRIF: miR-376b controls autophagy by directly regulating
            intracellular levels of two key autophagy proteins, ATG4C and
            BECN1.
REFERENCE   8  (bases 1 to 2944)
  AUTHORS   Croteau-Chonka,D.C., Marvelle,A.F., Lange,E.M., Lee,N.R.,
            Adair,L.S., Lange,L.A. and Mohlke,K.L.
  TITLE     Genome-wide association study of anthropometric traits and evidence
            of interactions with age and study year in Filipino women
  JOURNAL   Obesity (Silver Spring) 19 (5), 1019-1027 (2011)
   PUBMED   20966902
REFERENCE   9  (bases 1 to 2944)
  AUTHORS   Li,M., Hou,Y., Wang,J., Chen,X., Shao,Z.M. and Yin,X.M.
  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   10 (bases 1 to 2944)
  AUTHORS   Kathiresan,S., Melander,O., Guiducci,C., Surti,A., Burtt,N.P.,
            Rieder,M.J., Cooper,G.M., Roos,C., Voight,B.F., Havulinna,A.S.,
            Wahlstrand,B., Hedner,T., Corella,D., Tai,E.S., Ordovas,J.M.,
            Berglund,G., Vartiainen,E., Jousilahti,P., Hedblad,B.,
            Taskinen,M.R., Newton-Cheh,C., Salomaa,V., Peltonen,L., Groop,L.,
            Altshuler,D.M. and Orho-Melander,M.
  TITLE     Six new loci associated with blood low-density lipoprotein
            cholesterol, high-density lipoprotein cholesterol or triglycerides
            in humans
  JOURNAL   Nat Genet 40 (2), 189-197 (2008)
   PUBMED   18193044
  REMARK    Erratum:[Nat Genet. 2008 Nov;40(11):1384]
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BI518482.1, BC033024.1,
            BQ777265.1, BM146035.1 and AC099794.2.
            
            On Nov 22, 2018 this sequence version replaced NM_032852.3.
            
            Summary: Autophagy is the process by which endogenous proteins and
            damaged organelles are destroyed intracellularly. Autophagy is
            postulated to be essential for cell homeostasis and cell remodeling
            during differentiation, metamorphosis, non-apoptotic cell death,
            and aging. Reduced levels of autophagy have been described in some
            malignant tumors, and a role for autophagy in controlling the
            unregulated cell growth linked to cancer has been proposed. This
            gene encodes a member of the autophagin protein family. The encoded
            protein is also designated as a member of the C-54 family of
            cysteine proteases. Alternate transcriptional splice variants,
            encoding the same protein, have been characterized. [provided by
            RefSeq, Jul 2008].
            
            Transcript Variant: This variant (1) is the predominant transcript.
            Variants 1 and 2 encode the same protein.
            
            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 :: SRR1660803.173193.1,
                                           SRR1660803.246756.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000317868.9/ ENSP00000322159.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-636               BI518482.1         12-647
            637-1807            BC033024.1         622-1792
            1808-2438           BQ777265.1         14-644
            2439-2698           BM146035.1         15-274              c
            2699-2944           AC099794.2         121051-121296       c
FEATURES             Location/Qualifiers
     source          1..2944
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="1"
                     /map="1p31.3"
     gene            1..2944
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /note="autophagy related 4C cysteine peptidase"
                     /db_xref="GeneID:84938"
                     /db_xref="HGNC:HGNC:16040"
                     /db_xref="MIM:611339"
     exon            1..142
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     exon            143..286
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     CDS             211..1587
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /note="autophagin-3; autophagy-related cysteine
                     endopeptidase 3; AUT-like 3 cysteine endopeptidase;
                     epididymis secretory sperm binding protein;
                     autophagy-related protein 4 homolog C; AUT-like 1,
                     cysteine endopeptidase; APG4 autophagy 4 homolog C; ATG4
                     autophagy related 4 homolog C"
                     /codon_start=1
                     /product="cysteine protease ATG4C"
                     /protein_id="NP_116241.2"
                     /db_xref="CCDS:CCDS623.1"
                     /db_xref="GeneID:84938"
                     /db_xref="HGNC:HGNC:16040"
                     /db_xref="MIM:611339"
                     /translation="MEATGTDEVDKLKTKFISAWNNMKYSWVLKTKTYFSRNSPVLLL
                     GKCYHFKYEDEDKTLPAESGCTIEDHVIAGNVEEFRKDFISRIWLTYREEFPQIEGSA
                     LTTDCGWGCTLRTGQMLLAQGLILHFLGRAWTWPDALNIENSDSESWTSHTVKKFTAS
                     FEASLSGEREFKTPTISLKETIGKYSDDHEMRNEVYHRKIISWFGDSPLALFGLHQLI
                     EYGKKSGKKAGDWYGPAVVAHILRKAVEEARHPDLQGITIYVAQDCTVYNSDVIDKQS
                     ASMTSDNADDKAVIILVPVRLGGERTNTDYLEFVKGILSLEYCVGIIGGKPKQSYYFA
                     GFQDDSLIYMDPHYCQSFVDVSIKDFPLETFHCPSPKKMSFRKMDPSCTIGFYCRNVQ
                     DFKRASEEITKMLKFSSKEKYPLFTFVNGHSRDYDFTSTTTNEEDLFSEDEKKQLKRF
                     STEEFVLL"
     exon            287..370
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     exon            371..604
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     exon            605..935
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     exon            936..1006
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     exon            1007..1143
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     exon            1144..1222
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     exon            1223..1299
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     exon            1300..1419
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     exon            1420..2944
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1783..1788
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /note="hexamer: AATAAA"
     polyA_site      1807
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /note="major polyA site"
     regulatory      2562..2567
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /note="hexamer: AATAAA"
     polyA_site      2584
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /note="major polyA site"
     regulatory      2670..2675
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /note="hexamer: AATAAA"
     polyA_site      2698
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /note="major polyA site"
     regulatory      2922..2927
                     /regulatory_class="polyA_signal_sequence"
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
                     /note="hexamer: AATAAA"
     polyA_site      2944
                     /gene="ATG4C"
                     /gene_synonym="APG4-C; APG4C; AUTL1; AUTL3; HsAPG4C"
ORIGIN      
        1 aaagtacctg tagctgcggc gctgaggtcg gaacgtctgc gtgtgtgcgg gctggttttg
       61 tggcggctgc tgctagagct ggagcatttg ccgggttggt ggctcctgca catttttaca
      121 gttctccagt ccttctcttt cgtcagtata aaagattaaa ctctacagaa gaatgcaatc
      181 aagtgatggc ttttccttta gaatttgaat atggaggcta caggaacaga tgaagttgac
      241 aagctaaaaa ccaaatttat atctgcttgg aacaacatga aatatagttg ggtgttgaaa
      301 acaaagacgt attttagtag aaattctcct gtattattgc ttggaaaatg ttaccatttt
      361 aaatatgaag atgaagataa aacgttacct gcagagtcgg gatgtacaat agaggatcac
      421 gtaattgcag gaaatgtaga agaatttcgt aaagatttca tttctagaat atggctgacc
      481 tacagggaag aattccctca aatagaaggc tcagctttga caacagactg tgggtggggc
      541 tgcacattga gaactggcca gatgctcttg gctcaaggac tcatactaca ctttcttggt
      601 agagcttgga cctggcctga tgctttgaat attgaaaatt cagactctga atcatggact
      661 tcccacactg tcaaaaaatt tactgcatca tttgaagcat cactttcagg ggaaagagaa
      721 ttcaaaaccc caacaatttc tctgaaggaa acaattggga aatattctga tgatcatgaa
      781 atgcgaaatg aagtttatca taggaaaatc atctcttggt ttggtgattc ccccttggct
      841 ctttttggct tacatcaact aatagaatat ggaaagaagt ctgggaaaaa agcaggagat
      901 tggtatggac cagctgtggt tgctcacatt ttaagaaaag cagttgaaga agcaaggcat
      961 cctgatttac aaggaataac tatttatgtt gcacaagatt gtacagttta caattctgat
     1021 gtaattgata aacagagtgc ttccatgact tctgataatg cagatgacaa agctgttatt
     1081 attctagttc ctgttagact tggtggagaa agaaccaaca ccgactactt agaatttgtg
     1141 aagggtattt taagcctgga atattgtgtg ggtattattg gtggcaaacc taaacagtca
     1201 tattactttg ctggatttca agatgacagt ttgatttaca tggatcctca ttactgccaa
     1261 tcttttgtag atgtcagcat aaaggatttc cctcttgaga cattccactg cccttctccc
     1321 aaaaagatgt cttttcgaaa aatggatccc agctgtacaa taggatttta ctgtcgaaat
     1381 gttcaggact tcaaacgagc ttctgaagaa atcaccaaga tgctgaaatt ttcttctaag
     1441 gagaaatatc ccttatttac ttttgtaaat ggtcattcca gagactatga ttttacatct
     1501 actacaacca atgaagaaga ccttttttca gaggatgaaa agaaacaatt aaaaagattt
     1561 agcacggaag agtttgtctt gctttaaaga ttagcacatt tgtgcttgat aagaagaatt
     1621 ccattgaaag gggaaaaatg aagagaaaca agtatatctg aaatgtttat tttcacaaat
     1681 atcttaattt tatatgttct ttaaaaaaga acatttgaaa atataacagt taaagatatt
     1741 tttctaaaag agaaatgatt taatgaatct tgctttctaa taaataaatt gagtgattct
     1801 ggttgcattc ctatttccct aagatctact agtgataatt ctaccttaac tgtaagcctt
     1861 ttagtcttca aagtcttcca cctgagccca ttgttctcat ggaggttttg tgatattaac
     1921 cctcccccaa agactgggat caccaaatag tttcaaaatt ctcagtttgt actgaagacc
     1981 agaagatcag agaaggaaac tttaatgctg tctagcctcc tgctattaat gcaatcaaag
     2041 aatacttttg catatgtctt gataattaaa tagtatttgt taactgtgat atgcatacac
     2101 ttatataagc agaattatga gttaaagtaa tacttagcaa tatgatttta taatggctcc
     2161 tcattatgct tgctgttgaa ccttttatga ggagtgaata taaagtattg gttttccctc
     2221 acaaatttaa agattatgtt attaatacta ttataactgc atcaatcaag tcagataaag
     2281 gcaactataa aatagtagta gtgtttgttt cctatctcaa gggcgaaatt ttatgggaac
     2341 tcaatttatt atgcagtttt taagtttaaa ataccaagaa agatgtcact agattctctt
     2401 ctatgtgatt tttgtttttt atataaagca gtgtagtggt gtttagaagc tgaggccacc
     2461 tgtaaggcaa atctgcctta agtgtattat gtgttactta aaggcaaatt tgtgatctaa
     2521 aagtacaaga gtgatttttg agctaggatt ataaaataca taataaagat gtgagaagat
     2581 aaaatgcttt tgttttggtt ttaatgttgg gattatttta atcctttcat ttgaaaaatc
     2641 agtgtctcaa atgaattctg ttcatttata ataaatgcat atattgctct gaaaacaata
     2701 ttaatttttt taagtggagc tttcatgttt cagtgtagaa acgtgactta taaagacata
     2761 aaattgtgta tcatctaaag tcattgatct cttccatcag aaaacctgtt tgtttagagt
     2821 tgcatgtaaa gctgaaagag agggtgggcg gattgtttta gtatacctga tgagaaaaat
     2881 caggtttgac atttctcagt gaagattact tactgagttg aaataaatag tctgaaatct
     2941 aaaa
//
