LOCUS       NM_017921               4381 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens NPL4 homolog, ubiquitin recognition factor (NPLOC4),
            transcript variant 1, mRNA.
ACCESSION   NM_017921
VERSION     NM_017921.4
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 4381)
  AUTHORS   Wang,N., Zhu,D., Liu,Y., Wu,J., Wang,M., Jin,S., Fu,F., Li,B.,
            Ji,H., Du,C. and Zheng,Z.
  TITLE     NPLOC4 is a potential target and a poor prognostic signature in
            lung squamous cell carcinoma
  JOURNAL   Sci Rep 13 (1), 20430 (2023)
   PUBMED   37993584
  REMARK    GeneRIF: NPLOC4 is a potential target and a poor prognostic
            signature in lung squamous cell carcinoma.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4381)
  AUTHORS   Nguyen,T.Q., My Le,L.T., Kim,D.H., Ko,K.S., Lee,H.T., Kim
            Nguyen,Y.T., Kim,H.S., Han,B.W., Kang,W. and Yang,J.K.
  TITLE     Structural basis for the interaction between human Npl4 and
            Npl4-binding motif of human Ufd1
  JOURNAL   Structure 30 (11), 1530-1537 (2022)
   PUBMED   36087575
  REMARK    GeneRIF: Structural basis for the interaction between human Npl4
            and Npl4-binding motif of human Ufd1.
REFERENCE   3  (bases 1 to 4381)
  AUTHORS   Fujisawa,R., Polo Rivera,C. and Labib,K.P.M.
  TITLE     Multiple UBX proteins reduce the ubiquitin threshold of the
            mammalian p97-UFD1-NPL4 unfoldase
  JOURNAL   Elife 11, e76763 (2022)
   PUBMED   35920641
  REMARK    GeneRIF: Multiple UBX proteins reduce the ubiquitin threshold of
            the mammalian p97-UFD1-NPL4 unfoldase.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4381)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   5  (bases 1 to 4381)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   6  (bases 1 to 4381)
  AUTHORS   McConnell,E., Lass,A. and Wojcik,C.
  TITLE     Ufd1-Npl4 is a negative regulator of cholera toxin
            retrotranslocation
  JOURNAL   Biochem Biophys Res Commun 355 (4), 1087-1090 (2007)
   PUBMED   17331469
  REMARK    GeneRIF: Ufd1-Npl4 is a negative regulator of retrotranslocation,
            delaying the retrotranslocation of endoplasmic reticulum-associated
            degradation substrates independently of its association with VCP
REFERENCE   7  (bases 1 to 4381)
  AUTHORS   Arrigoni,R., Alam,S.L., Wamstad,J.A., Bardwell,V.J., Sundquist,W.I.
            and Schreiber-Agus,N.
  TITLE     The Polycomb-associated protein Rybp is a ubiquitin binding protein
  JOURNAL   FEBS Lett 580 (26), 6233-6241 (2006)
   PUBMED   17070805
  REMARK    Erratum:[FEBS Lett. 2006 Dec 11;580(28-29):6754]
REFERENCE   8  (bases 1 to 4381)
  AUTHORS   Gevaert,K., Goethals,M., Martens,L., Van Damme,J., Staes,A.,
            Thomas,G.R. and Vandekerckhove,J.
  TITLE     Exploring proteomes and analyzing protein processing by mass
            spectrometric identification of sorted N-terminal peptides
  JOURNAL   Nat Biotechnol 21 (5), 566-569 (2003)
   PUBMED   12665801
REFERENCE   9  (bases 1 to 4381)
  AUTHORS   Botta,A., Tandoi,C., Fini,G., Calabrese,G., Dallapiccola,B. and
            Novelli,G.
  TITLE     Cloning and characterization of the gene encoding human NPL4, a
            protein interacting with the ubiquitin fusion-degradation protein
            (UFD1L)
  JOURNAL   Gene 275 (1), 39-46 (2001)
   PUBMED   11574150
REFERENCE   10 (bases 1 to 4381)
  AUTHORS   Meyer,H.H., Shorter,J.G., Seemann,J., Pappin,D. and Warren,G.
  TITLE     A complex of mammalian ufd1 and npl4 links the AAA-ATPase, p97, to
            ubiquitin and nuclear transport pathways
  JOURNAL   EMBO J 19 (10), 2181-2192 (2000)
   PUBMED   10811609
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            HY116973.1, BC025930.1, AB040932.1, AK000664.1 and AC137896.5.
            
            On Nov 23, 2018 this sequence version replaced NM_017921.3.
            
            Transcript Variant: This variant (1) encodes 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 :: AK000664.1, SRR1803614.16377.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000331134.11/ ENSP00000331487.5
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-18                HY116973.1         44-61
            19-454              BC025930.1         1-436
            455-953             AB040932.1         403-901
            954-1852            AK000664.1         904-1802
            1853-3504           AC137896.5         52792-54443         c
            3505-4381           AK000664.1         3455-4331
FEATURES             Location/Qualifiers
     source          1..4381
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="17"
                     /map="17q25.3"
     gene            1..4381
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /note="NPL4 homolog, ubiquitin recognition factor"
                     /db_xref="GeneID:55666"
                     /db_xref="HGNC:HGNC:18261"
                     /db_xref="MIM:606590"
     exon            1..197
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     CDS             183..2009
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /note="isoform 1 is encoded by transcript variant 1;
                     nuclear protein localization protein 4 homolog; nuclear
                     protein localization 4 homolog; NPLOC4 ubiquitin
                     recognition factor"
                     /codon_start=1
                     /product="nuclear protein localization protein 4 homolog
                     isoform 1"
                     /protein_id="NP_060391.2"
                     /db_xref="CCDS:CCDS45812.1"
                     /db_xref="GeneID:55666"
                     /db_xref="HGNC:HGNC:18261"
                     /db_xref="MIM:606590"
                     /translation="MAESIIIRVQSPDGVKRITATKRETAATFLKKVAKEFGFQNNGF
                     SVYINRNKTGEITASSNKSLNLLKIKHGDLLFLFPSSLAGPSSEMETSVPPGFKVFGA
                     PNVVEDEIDQYLSKQDGKIYRSRDPQLCRHGPLGKCVHCVPLEPFDEDYLNHLEPPVK
                     HMSFHAYIRKLTGGADKGKFVALENISCKIKSGCEGHLPWPNGICTKCQPSAITLNRQ
                     KYRHVDNIMFENHTVADRFLDFWRKTGNQHFGYLYGRYTEHKDIPLGIRAEVAAIYEP
                     PQIGTQNSLELLEDPKAEVVDEIAAKLGLRKVGWIFTDLVSEDTRKGTVRYSRNKDTY
                     FLSSEECITAGDFQNKHPNMCRLSPDGHFGSKFVTAVATGGPDNQVHFEGYQVSNQCM
                     ALVRDECLLPCKDAPELGYAKESSSEQYVPDVFYKDVDKFGNEITQLARPLPVEYLII
                     DITTTFPKDPVYTFSISQNPFPIENRDVLGETQDFHSLATYLSQNTSSVFLDTISDFH
                     LLLFLVTNEVMPLQDSISLLLEAVRTRNEELAQTWKRSEQWATIEQLCSTVGGQLPGL
                     HEYGAVGGSTHTATAAMWACQHCTFMNQPGTGHCEMCSLPRT"
     exon            198..278
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            279..391
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            392..568
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            569..617
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            618..712
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            713..836
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            837..1016
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            1017..1103
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            1104..1175
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            1176..1302
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            1303..1463
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            1464..1535
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            1536..1631
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            1632..1748
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            1749..1851
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     exon            1852..4381
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      4362..4367
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /note="hexamer: AATAAA"
     polyA_site      4381
                     /gene="NPLOC4"
                     /gene_synonym="NPL4"
                     /note="major polyA site"
ORIGIN      
        1 gtattgagcg aggcaccggg acgtcggcgg ctggcggagc cgggcgggcg aagctggagc
       61 ggcggtggcg gcggcgtagg gaggccgggg ccggggctga ggccgcggcc gggtctgcga
      121 ggcccttggg gcggcaggcg gcggcggccc ggggctcgag cccggaggca ggagcagccg
      181 ccatggccga gagcatcata attcgtgtcc agtccccgga tggagtgaag cggatcacag
      241 caacaaagag agaaacagca gcaacatttt tgaaaaaggt tgcaaaggag tttggcttcc
      301 aaaataatgg cttctcggtt tacatcaata gaaacaagac cggagagata acagcctcct
      361 ccaacaaatc cctcaacttg ctaaaaatca agcatggcga tttgttgttc ctgtttccct
      421 cgagccttgc tgggccctca tctgaaatgg agacgtcagt tccaccgggc ttcaaagtct
      481 ttggcgctcc caacgtggtg gaggatgaga ttgatcagta cctcagcaaa caggacggga
      541 agatttacag aagccgagac ccacagctat gccgccacgg ccctttgggg aaatgcgtgc
      601 actgcgtccc tctagagcca ttcgatgagg actatctaaa ccatctcgag cctcccgtga
      661 agcacatgtc cttccacgcc tacatccgga agctgactgg aggggctgac aaggggaagt
      721 ttgttgccct ggagaacatc agctgcaaga ttaagtcagg gtgcgagggg cacctcccgt
      781 ggccgaatgg catctgtact aagtgccagc cgagcgccat cacgctgaac agacagaagt
      841 acaggcatgt ggacaatatc atgtttgaga atcacaccgt cgctgaccgc tttcttgact
      901 tctggagaaa gacagggaac cagcattttg ggtacttata cggacggtac acggagcaca
      961 aagacattcc ccttggcatc agggctgaag tggctgcgat ttatgagcca cctcagattg
     1021 gtacacagaa cagcttggag cttcttgagg atccaaaagc tgaagtggtc gatgaaattg
     1081 ctgccaaact tggcctgcgg aaggttggct ggatatttac agacctcgtc tcagaagata
     1141 cccgaaaggg taccgtccgc tacagtcgaa ataaggacac ctatttccta agttcagaag
     1201 agtgcatcac tgcaggagac ttccagaaca agcatcccaa catgtgccgg ctctctccag
     1261 acggacattt tggatccaag tttgttactg cagtggctac aggtggtcct gacaaccaag
     1321 tccactttga agggtaccag gtgtccaatc agtgtatggc actggtccgt gatgagtgtt
     1381 tgctgccatg caaggacgcc ccggagcttg gctacgccaa ggagtctagc agtgagcagt
     1441 acgtgcctga tgtgttttat aaggacgtag acaagtttgg caacgagatc acccagctgg
     1501 cccggcccct gcctgtggag tatctcatca tagacatcac aacaactttc cccaaggatc
     1561 cagtttacac tttttctatt tcgcaaaatc catttcctat tgaaaaccgg gatgtattgg
     1621 gtgagacaca ggacttccat agcttggcca cctatttgtc tcagaatacc tcatctgtgt
     1681 tcttggatac catctcagat ttccacctct tgctgttcct ggtcaccaat gaagttatgc
     1741 ctctgcagga cagcatcagc ttgctgctgg aggccgtgcg gaccagaaat gaggagctcg
     1801 cccagacatg gaagaggtct gagcagtggg ccaccatcga gcagctgtgc agcacagttg
     1861 gcgggcagct cccaggtctc catgagtacg gcgccgtcgg gggctccaca cacacggcca
     1921 ctgcagccat gtgggcctgt cagcactgca cgttcatgaa ccagccaggc acaggccact
     1981 gcgagatgtg cagcctcccc aggacctagg gcgcctgccc tctgctggct aggaccgggc
     2041 ccagcccagc ccttcctgaa gccagaagcg ttgctgagtg tgttccctgt aactgcccca
     2101 tagtgggcag ccctggagga acaaggggct ggctgtcctg ggctccctga cccactgaag
     2161 cttctcagca cgttcctccc tggagagcgg gcgccacggc tggtattctg caggctgaat
     2221 gcagtctcca gactggaaac gcagagcggc tcctcacgcc taatcctgtt gacaagtccc
     2281 ccgccgtgtt ggaaagacct ctcgcctcta cgtggcacct ggaattgggg cgcacaggga
     2341 ggggccgatg ctgccaccac ccagccttct ctttattttc agtgcttttt gtttggcctc
     2401 cctgccccca tgtttttctg gctgggagct cttggttacc cccttgtctg actgcttggt
     2461 ggcaggcacc ctgcctgtga gggccacttt cctcttctag tagctgttgt ctggtgggga
     2521 cgcagtggcc ctggacacgg ctcccctctg caggtctgca ggtcggtttg ctgcctgccc
     2581 tcctcctctc acccgatgtc caggtgggat tttaaagtct gcattggtta taataacagt
     2641 tatcagtaat tcctgcccag aagactttta tttatttttt tttaagataa aaactgcaca
     2701 aaaggggagt gagagagact agtttccaca tccttccctc ctttagtgaa gcccccgagg
     2761 ttgtgtccag ggtgatgagt gtggacgggg gcaccagtca gttctccctt gaagtaaacc
     2821 tcagtgcctg agacttttct accaagccac acagctgcag caactgcaga tactgcgggc
     2881 tgagcaggag cagtggtggc gcctgccctg aggctgccct gcgatggcct gggtgggaga
     2941 gctgggtcac cggtgccgat gctctggccc tccccaatac gctgcttcgt cccactgcac
     3001 cgcctggctg agggcgttag gggctgtgcc tcttgtgagg gccatttggg acctccctgg
     3061 ggcactgcac aattgatagt gtaccaatag agggagactg ggcgatctgg aacagcacgt
     3121 ggtggggtcc tgcttgtgtg ctctgcgttc ctctgtggcg tggccaggcc ggggcatggc
     3181 tcttacccgg ggagtggtgg gcatctcgat gcttctttgc cttaatgatg gccacatctg
     3241 ggctgctctg cacccacggg agaggctggc ccagctgcag actgcttagg gacttctgtg
     3301 tccatcctgg ggggtaagcc cacgtgaccc acattcttgg cactatgaac agagaacatt
     3361 tgcctgttgg cttctgaagt ggtcagggcc atggctgaca cctccaggtc cgcctggcat
     3421 gggacaccaa gtggaaggcc caagcagctc atctgctctt gggaccaggg gccagttggg
     3481 ttgggtctgg tcacggcaga gctattgtgg agggtcagga agggtggaga ggagctgggt
     3541 tgaagcggac tgctgcggat gcaactccca gcttgcccac cgcgggctgt ctgctctccc
     3601 tcctagcagc tgtcacactg aagttttgtc ctctgctgtc tcctctggtc ctgagatgag
     3661 ctgtgagcct aggtggccaa ggcttcctgc attgcttccc tgtgagtcca aggccttccc
     3721 ccaccactgg gcagaggctg gacagcacgg acttctagag agagccgcgt tgccagttcc
     3781 tctcccactc gctcgtcctt atccaccacg ctattatagt ttccgttgtc ctccaccagc
     3841 atttccctta ctctgaagtt ccggcattca catcattcat gttttctttt gtcttttagc
     3901 taaaggaaaa gcattggcga tttgtctgat tctggttttg agttactctt tgttcagtaa
     3961 tgcactttat tttattgtcc aaagagagtc agagctaagc atacaggctt gggggtgagc
     4021 cctgctgtga gagttcaggc cctgggaggc tcagccacct cctcttgtgg gaaggaggtc
     4081 tcagccccac ctcgcatctt cacctgccct tggtgtggac acaccctctc atgctaccag
     4141 caccataatc cagtgggggt gactgggtgc acacctgccc aggtgaacac agcggctgcc
     4201 agtctcctgg tcccgagagg aggtggggcc tggccctggc tccctccaac cagctgctcc
     4261 tgggacacag gtgctcctgc ttcggctctg tttcggctca caggtgtgca tcactgggct
     4321 tggatttgca ttacattgac cccagccctg cagtggaacc taataaaagc gcctgaagca
     4381 a
//
