LOCUS       NM_016079               3138 bp    mRNA    linear   PRI 03-MAY-2024
DEFINITION  Homo sapiens charged multivesicular body protein 3 (CHMP3),
            transcript variant 1, mRNA.
ACCESSION   NM_016079
VERSION     NM_016079.4
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 3138)
  AUTHORS   Zheng,Y., Yang,S., Dai,W., Wang,J., Bi,S., Zhang,X., Zheng,Z.,
            Sun,Y., Wu,S. and Kong,J.
  TITLE     CHMP3 promotes the progression of hepatocellular carcinoma by
            inhibiting caspase-1-dependent pyroptosis
  JOURNAL   Int J Oncol 64 (1) (2024)
   PUBMED   38038147
  REMARK    GeneRIF: CHMP3 promotes the progression of hepatocellular carcinoma
            by inhibiting caspase-1-dependent pyroptosis.
REFERENCE   2  (bases 1 to 3138)
  AUTHORS   Wenzel,D.M., Mackay,D.R., Skalicky,J.J., Paine,E.L., Miller,M.S.,
            Ullman,K.S. and Sundquist,W.I.
  TITLE     Comprehensive analysis of the human ESCRT-III-MIT domain
            interactome reveals new cofactors for cytokinetic abscission
  JOURNAL   Elife 11, e77779 (2022)
   PUBMED   36107470
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3138)
  AUTHORS   Lata,S., Schoehn,G., Jain,A., Pires,R., Piehler,J., Gottlinger,H.G.
            and Weissenhorn,W.
  TITLE     Helical structures of ESCRT-III are disassembled by VPS4
  JOURNAL   Science 321 (5894), 1354-1357 (2008)
   PUBMED   18687924
  REMARK    GeneRIF: study found the ESCRT-III proteins CHMP2A & CHMP3 could
            assemble in vitro into helical tubular structures that expose their
            membrane interaction sites on the outside of the tubule; VPS4 could
            bind on the inside of the tubule & disassemble the tubes
REFERENCE   4  (bases 1 to 3138)
  AUTHORS   Row,P.E., Liu,H., Hayes,S., Welchman,R., Charalabous,P.,
            Hofmann,K., Clague,M.J., Sanderson,C.M. and Urbe,S.
  TITLE     The MIT domain of UBPY constitutes a CHMP binding and endosomal
            localization signal required for efficient epidermal growth factor
            receptor degradation
  JOURNAL   J Biol Chem 282 (42), 30929-30937 (2007)
   PUBMED   17711858
  REMARK    GeneRIF: UBPY MIT domain and another ubiquitin isopeptidase, AMSH,
            reveals common interactions with CHMP1A and CHMP1B but a distinct
            selectivity of AMSH for CHMP3/VPS24, a core subunit of the
            ESCRT-III complex, and UBPY for CHMP7.
            Erratum:[J Biol Chem. 2009 Mar 20;284(12):8207]
REFERENCE   5  (bases 1 to 3138)
  AUTHORS   Khoury,C.M., Yang,Z., Ismail,S. and Greenwood,M.T.
  TITLE     Characterization of a novel alternatively spliced human transcript
            encoding an N-terminally truncated Vps24 protein that suppresses
            the effects of Bax in an ESCRT independent manner in yeast
  JOURNAL   Gene 391 (1-2), 233-241 (2007)
   PUBMED   17331679
  REMARK    GeneRIF: Data demonstrate that the VPS24 gene gives rise to two
            functionally distinct proteins, one of which is involved in the
            ESCRT pathway and another novel protein that serves an
            anti-apoptotic role.
REFERENCE   6  (bases 1 to 3138)
  AUTHORS   Bache,K.G., Stuffers,S., Malerod,L., Slagsvold,T., Raiborg,C.,
            Lechardeur,D., Walchli,S., Lukacs,G.L., Brech,A. and Stenmark,H.
  TITLE     The ESCRT-III subunit hVps24 is required for degradation but not
            silencing of the epidermal growth factor receptor
  JOURNAL   Mol Biol Cell 17 (6), 2513-2523 (2006)
   PUBMED   16554368
  REMARK    GeneRIF: ESCRT subunit is important for degradation of the
            epidermal growth factor receptor (EGFR) and for transport of the
            receptor from endosomes to lysosomes.
REFERENCE   7  (bases 1 to 3138)
  AUTHORS   Yan,Q., Hunt,P.R., Frelin,L., Vida,T.A., Pevsner,J. and Bean,A.J.
  TITLE     mVps24p functions in EGF receptor sorting/trafficking from the
            early endosome
  JOURNAL   Exp Cell Res 304 (1), 265-273 (2005)
   PUBMED   15707591
REFERENCE   8  (bases 1 to 3138)
  AUTHORS   Whitley,P., Reaves,B.J., Hashimoto,M., Riley,A.M., Potter,B.V. and
            Holman,G.D.
  TITLE     Identification of mammalian Vps24p as an effector of
            phosphatidylinositol 3,5-bisphosphate-dependent endosome
            compartmentalization
  JOURNAL   J Biol Chem 278 (40), 38786-38795 (2003)
   PUBMED   12878588
  REMARK    GeneRIF: In rodents, this protein selectively binds
            phosphatidylinositol 3,5-bisphosphate and phosphatidylinositol
            3,4-bisphosphate and may participate in endosomal trafficking.
REFERENCE   9  (bases 1 to 3138)
  AUTHORS   Babst,M., Katzmann,D.J., Estepa-Sabal,E.J., Meerloo,T. and Emr,S.D.
  TITLE     Escrt-III: an endosome-associated heterooligomeric protein complex
            required for mvb sorting
  JOURNAL   Dev Cell 3 (2), 271-282 (2002)
   PUBMED   12194857
REFERENCE   10 (bases 1 to 3138)
  AUTHORS   Lippincott-Schwartz,J., Roberts,T.H. and Hirschberg,K.
  TITLE     Secretory protein trafficking and organelle dynamics in living
            cells
  JOURNAL   Annu Rev Cell Dev Biol 16, 557-589 (2000)
   PUBMED   11031247
  REMARK    Review article
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from DA290886.1, AK312353.1,
            BC004419.1, BU192410.1, AK025046.1 and AF151907.1.
            
            On Nov 23, 2018 this sequence version replaced NM_016079.3.
            
            Summary: This gene encodes a protein that sorts transmembrane
            proteins into lysosomes/vacuoles via the multivesicular body (MVB)
            pathway. This protein, along with other soluble coiled-coil
            containing proteins, forms part of the ESCRT-III protein complex
            that binds to the endosomal membrane and recruits additional
            cofactors for protein sorting into the MVB. This protein may also
            co-immunoprecipitate with a member of the IFG-binding protein
            superfamily. Alternative splicing results in multiple transcript
            variants. Read-through transcription also exists between this gene
            and the upstream ring finger protein 103 (RNF103) gene. [provided
            by RefSeq, Nov 2010].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (1, also known as
            Vps24alpha).
            
            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 :: AF151907.1, SRR1660809.80551.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968540, SAMEA1970526
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000263856.9/ ENSP00000263856.4
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-3                 DA290886.1         55-57
            4-764               AK312353.1         4-764
            765-2059            BC004419.1         717-2011
            2060-2400           BU192410.1         11-351
            2401-3060           AK025046.1         1345-2004
            3061-3138           AF151907.1         2985-3062
FEATURES             Location/Qualifiers
     source          1..3138
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="2"
                     /map="2p11.2"
     gene            1..3138
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /note="charged multivesicular body protein 3"
                     /db_xref="GeneID:51652"
                     /db_xref="HGNC:HGNC:29865"
                     /db_xref="MIM:610052"
     exon            1..140
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /inference="alignment:Splign:2.1.0"
     CDS             96..764
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /note="isoform 1 is encoded by transcript variant 1;
                     neuroendocrine differentiation factor; vacuolar protein
                     sorting 24 homolog; CHMP family, member 3; 25.1 protein;
                     chromatin-modifying protein 3; vacuolar protein
                     sorting-associated protein 24"
                     /codon_start=1
                     /product="charged multivesicular body protein 3 isoform 1"
                     /protein_id="NP_057163.1"
                     /db_xref="CCDS:CCDS33236.1"
                     /db_xref="GeneID:51652"
                     /db_xref="HGNC:HGNC:29865"
                     /db_xref="MIM:610052"
                     /translation="MGLFGKTQEKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKV
                     KRSVKDAAKKGQKDVCIVLAKEMIRSRKAVSKLYASKAHMNSVLMGMKNQLAVLRVAG
                     SLQKSTEVMKAMQSLVKIPEIQATMRELSKEMMKAGIIEEMLEDTFESMDDQEEMEEE
                     AEMEIDRILFEITAGALGKAPSKVTDALPEPEPPGAMAASEDEEEEEEALEAMQSRLA
                     TLRS"
     exon            141..201
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /inference="alignment:Splign:2.1.0"
     exon            202..381
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /inference="alignment:Splign:2.1.0"
     exon            382..503
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /inference="alignment:Splign:2.1.0"
     exon            504..618
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /inference="alignment:Splign:2.1.0"
     exon            619..3138
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /inference="alignment:Splign:2.1.0"
     regulatory      943..948
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /note="hexamer: AATAAA"
     polyA_site      967
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /note="major polyA site"
     regulatory      3044..3049
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /note="hexamer: AATAAA"
     polyA_site      3064
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /note="major polyA site"
     regulatory      3106..3111
                     /regulatory_class="polyA_signal_sequence"
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /note="hexamer: AATAAA"
     polyA_site      3138
                     /gene="CHMP3"
                     /gene_synonym="CGI-149; NEDF; VPS24"
                     /note="major polyA site"
ORIGIN      
        1 ctccttttcc gcgggccccg cccaggcggc tgcccgtgac ctgcctgggc gcggggaact
       61 gaaagccgga aggggcaaga cgggttcagt tcgtcatggg gctgtttgga aagacccagg
      121 agaagccgcc caaagaactg gtcaatgagt ggtcattgaa gataagaaag gaaatgagag
      181 ttgttgacag gcaaataagg gatatccaaa gagaagaaga aaaagtgaaa cgatctgtga
      241 aagatgctgc caagaagggc cagaaggatg tctgcatagt tctggccaag gagatgatca
      301 ggtcaaggaa ggctgtgagc aagctgtatg catccaaagc acacatgaac tcagtgctca
      361 tggggatgaa gaaccagctc gcggtcttgc gagtggctgg ttccctgcag aagagcacag
      421 aagtgatgaa ggccatgcaa agtcttgtga agattccaga gattcaggcc accatgaggg
      481 agttgtccaa agaaatgatg aaggctggga tcatagagga gatgttagag gacacttttg
      541 aaagcatgga cgatcaggaa gaaatggagg aagaagcaga aatggaaatt gacagaattc
      601 tctttgaaat tacagcaggg gccttgggca aagcacccag taaagtgact gatgcccttc
      661 cagagccaga acctccagga gcgatggctg cctcagagga tgaggaggag gaggaagagg
      721 ctctggaggc catgcagtcc cggctggcca cactccgcag ctaggggctg cctaccccgc
      781 tgggtgtgca cacactcctc tcaagagctg ccattttatg tgtctcttgc actacacctc
      841 tgttgtgagg actaccattt tggagaaggt tctgtttgtc tcttttcatt ctctgcccag
      901 gttttgggat cgcaaaggga ttgttcttat aaaagtggca taaataaatg catcattttt
      961 aggagtatag acagatatat cttattgtgg ggaggggaaa gaaatccatc tgctcatgaa
     1021 gcacttctga aaatataggt gattgcctga atgtcgaaga ctctactttt gtctataaaa
     1081 cactatataa atgaatttta ataaattttt gctttagcac ttggccccat tgtagattgc
     1141 cctgtgcagt aaactttcaa ggtgtcggct gccccagatt gcttcatttg ctgggtgtgg
     1201 aaagagttgc tatggccagg catatgggat ttggaagctc agcagaagtg acttctgctc
     1261 tgtggttgct gctccccggc tttcacagac atggtatggc agccattctt ttatctattt
     1321 aaccaagagg atgctgggga attgtgctgc ttgtcctgtt ggctggtggc tgcattatgt
     1381 cctggggtgt gcatgtgggt ctatttagag cttctgtccc ttccttccca ttgcaagttg
     1441 cacccagatg agacagctgt agtactaggt ctctttcacc tctcattgcc tgtccctgct
     1501 tcgagctggt tgtcttgtgc gtgggacatg ggccttccta tctgtgtttt ctcaaagtca
     1561 ggagctgacc aggagcacac taaggtgtgg tcatgcatca taaccaacat tcactcatct
     1621 gggacattct taagatacat ttataaatca tttcagcagt agtactttgt atgtgttgag
     1681 agtttacaga gctctttgac atacgcgatc ttagtcttta caaataagga aaacagctca
     1741 gtttgggaag tatcagagat gggattcaaa cccagatcct ctggtccaag ttgtatgtgc
     1801 actgaactaa tcaggcagga aaaaagccca gccactgtct cacagattgt tttttgtata
     1861 ttgtagcaaa atcctgaaac aatggggtcc ttccagtctc atcatacaaa atggcaatct
     1921 tggctgggtg cggtggttca tgcctataat cccagtgctt tacaaggctg aggcaggagg
     1981 ctctcttgag aataggagtt caagaccagc ctgggcaaca tagcaagatc ctgtctctcc
     2041 aaaaaaaaaa aaaaaaaaaa aaaaaaattt catttttgag tccagaggac cctcctatta
     2101 ctcttgattt catcttcaga gtgtagttaa aaaattattt taaataatta tttttttaaa
     2161 tcagttgtag gttcacagca aaagtggaca aaaagaaatt tctcatatat cccctgccct
     2221 cacacatgca tagcctccca ccactatcag tatcccacac cagagtggta catttgttac
     2281 aatcaataaa cctccattga cacatcatta tcacccaaag tccatagttt acatgaagat
     2341 tcactctggt gttgtacatt gtatgggctt agacaaatgt atgatgatat ctacaattat
     2401 agaatcatac agaatagttt cactgcccta aaacttctct atgcttcacc tgttcatccc
     2461 tttcttccct aatcccctgg caaccacttt aaaaaaaaaa ttaggttcag ggggtacatg
     2521 tgcaggtaaa ctcgtgacaa gggggtttgt tatacagatt atttagtgac ccaggtacta
     2581 agcctagtac ccaatagtta cttttctggt cctgtccctt ttcccaccct ccaccctcag
     2641 gtaggcccca gtatgttatt cctttgtgtc catgttattt cactcccact tgtgagaaca
     2701 tggaatattt ggtttcctgt tcctatgtta gtttgttaag gataatggcc tccagcccca
     2761 tccatgttcc tgcaaaggac atgatctttc tttggcaacc actttttact gtcgccatag
     2821 ttcttccttt tctagaatgt catattggaa tcatatagta tgtagccttt tcagactggc
     2881 ttctttcact taataatatg caattaaggt tcctccatgt catttcatgg cttaatagtg
     2941 catttatttt tagcactgaa taatactcca ttgtctagat gaatagttta tccattcacc
     3001 tattgaaaga cttcttggtg gtttccaagt tttggcaatt atgaataaag ctgttgtaaa
     3061 catctttgtg caggtttttc tatgggcatg tttttaattc atttgaataa ataccaagag
     3121 cttcagtgct ggatcata
//
