LOCUS       NM_007342               1571 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens nucleoporin 42 (NUP42), transcript variant 2, mRNA.
ACCESSION   NM_007342
VERSION     NM_007342.3
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 1571)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   2  (bases 1 to 1571)
  AUTHORS   Schwartz,T.U.
  TITLE     The Structure Inventory of the Nuclear Pore Complex
  JOURNAL   J Mol Biol 428 (10 Pt A), 1986-2000 (2016)
   PUBMED   27016207
  REMARK    Review article
REFERENCE   3  (bases 1 to 1571)
  AUTHORS   Bui,K.H., von Appen,A., DiGuilio,A.L., Ori,A., Sparks,L.,
            Mackmull,M.T., Bock,T., Hagen,W., Andres-Pons,A., Glavy,J.S. and
            Beck,M.
  TITLE     Integrated structural analysis of the human nuclear pore complex
            scaffold
  JOURNAL   Cell 155 (6), 1233-1243 (2013)
   PUBMED   24315095
REFERENCE   4  (bases 1 to 1571)
  AUTHORS   Baltz,A.G., Munschauer,M., Schwanhausser,B., Vasile,A.,
            Murakawa,Y., Schueler,M., Youngs,N., Penfold-Brown,D., Drew,K.,
            Milek,M., Wyler,E., Bonneau,R., Selbach,M., Dieterich,C. and
            Landthaler,M.
  TITLE     The mRNA-bound proteome and its global occupancy profile on
            protein-coding transcripts
  JOURNAL   Mol Cell 46 (5), 674-690 (2012)
   PUBMED   22681889
REFERENCE   5  (bases 1 to 1571)
  AUTHORS   Waldmann,I., Spillner,C. and Kehlenbach,R.H.
  TITLE     The nucleoporin-like protein NLP1 (hCG1) promotes CRM1-dependent
            nuclear protein export
  JOURNAL   J Cell Sci 125 (Pt 1), 144-154 (2012)
   PUBMED   22250199
  REMARK    GeneRIF: NLP1 functions as an accessory factor in CRM1-dependent
            nuclear protein export
REFERENCE   6  (bases 1 to 1571)
  AUTHORS   Shiota,C., Coffey,J., Grimsby,J., Grippo,J.F. and Magnuson,M.A.
  TITLE     Nuclear import of hepatic glucokinase depends upon glucokinase
            regulatory protein, whereas export is due to a nuclear export
            signal sequence in glucokinase
  JOURNAL   J Biol Chem 274 (52), 37125-37130 (1999)
   PUBMED   10601273
REFERENCE   7  (bases 1 to 1571)
  AUTHORS   Farjot,G., Sergeant,A. and Mikaelian,I.
  TITLE     A new nucleoporin-like protein interacts with both HIV-1 Rev
            nuclear export signal and CRM-1
  JOURNAL   J Biol Chem 274 (24), 17309-17317 (1999)
   PUBMED   10358091
REFERENCE   8  (bases 1 to 1571)
  AUTHORS   Katahira,J., Strasser,K., Podtelejnikov,A., Mann,M., Jung,J.U. and
            Hurt,E.
  TITLE     The Mex67p-mediated nuclear mRNA export pathway is conserved from
            yeast to human
  JOURNAL   EMBO J 18 (9), 2593-2609 (1999)
   PUBMED   10228171
REFERENCE   9  (bases 1 to 1571)
  AUTHORS   Fouchier,R.A., Meyer,B.E., Simon,J.H., Fischer,U., Albright,A.V.,
            Gonzalez-Scarano,F. and Malim,M.H.
  TITLE     Interaction of the human immunodeficiency virus type 1 Vpr protein
            with the nuclear pore complex
  JOURNAL   J Virol 72 (7), 6004-6013 (1998)
   PUBMED   9621063
REFERENCE   10 (bases 1 to 1571)
  AUTHORS   Van Laer,L., Van Camp,G., van Zuijlen,D., Green,E.D.,
            Verstreken,M., Schatteman,I., Van de Heyning,P., Balemans,W.,
            Coucke,P., Greinwald,J.H., Smith,R.J., Huizing,E. and Willems,P.
  TITLE     Refined mapping of a gene for autosomal dominant progressive
            sensorineural hearing loss (DFNA5) to a 2-cM region, and exclusion
            of a candidate gene that is expressed in the cochlea
  JOURNAL   Eur J Hum Genet 5 (6), 397-405 (1997)
   PUBMED   9450185
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            U97198.1 and AI352214.1.
            
            On Nov 22, 2018 this sequence version replaced NM_007342.2.
            
            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 :: SRR3476690.1174588.1,
                                           SRR3476690.183434.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000258742.10/ ENSP00000258742.5
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1570              U97198.1           182-1751
            1571-1571           AI352214.1         8-8                 c
FEATURES             Location/Qualifiers
     source          1..1571
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="7"
                     /map="7p15.3"
     gene            1..1571
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /note="nucleoporin 42"
                     /db_xref="GeneID:11097"
                     /db_xref="HGNC:HGNC:17010"
                     /db_xref="MIM:619998"
     exon            1..159
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /inference="alignment:Splign:2.1.0"
     CDS             39..1310
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /note="isoform 2 is encoded by transcript variant 2;
                     nucleoporin-like protein 1; H_RG271G13.9; nucleoporin-like
                     protein 2; NUP42 homolog; nucleoporin hCG1; nucleoporin
                     like 2; nucleoporin NUP42"
                     /codon_start=1
                     /product="nucleoporin NUP42 isoform 2"
                     /protein_id="NP_031368.1"
                     /db_xref="CCDS:CCDS5379.1"
                     /db_xref="GeneID:11097"
                     /db_xref="HGNC:HGNC:17010"
                     /db_xref="MIM:619998"
                     /translation="MAICQFFLQGRCRFGDRCWNEHPGARGAGGGRQQPQQQPSGNNR
                     RGWNTTSQRYSNVIQPSSFSKSTPWGGSRDQEKPYFSSFDSGASTNRKEGFGLSENPF
                     ASLSPDEQKDEKKLLEGIVKDMEVWESSGQWMFSVYSPVKKKPNISGFTDISPEELRL
                     EYHNFLTSNNLQSYLNSVQRLINQWRNRVNELKSLNISTKVALLSDVKDGVNQAAPAF
                     GFGSSQAATFMSPGFPVNNSSSDNAQNFSFKTNSGFAAASSGSPAGFGSSPAFGAAAS
                     TSSGISTSAPAFGFGKPEVTSAASFSFKSPAASSFGSPGFSGLPASLATGPVRAPVAP
                     AFGGGSSVAGFGSPGSHSHTAFSKPSSDTFGNSSISTSLSASSSIIATDNVLFTPRDK
                     LTVEELEQFQSKKFTLGKIPLKPPPLELLNV"
     exon            160..388
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /inference="alignment:Splign:2.1.0"
     exon            389..483
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /inference="alignment:Splign:2.1.0"
     exon            484..560
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /inference="alignment:Splign:2.1.0"
     exon            561..647
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /inference="alignment:Splign:2.1.0"
     exon            648..732
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /inference="alignment:Splign:2.1.0"
     exon            733..1571
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1549..1554
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /note="hexamer: AATAAA"
     polyA_site      1571
                     /gene="NUP42"
                     /gene_synonym="CG1; hCG1; NLP-1; NLP1; NLP_1; NUPL2; UIP1"
                     /note="major polyA site"
ORIGIN      
        1 gcagactgaa gacgccctcc gtcagcgacg ccgtcgcaat ggccatttgt caattcttcc
       61 ttcaaggccg gtgccgcttt ggagatcggt gctggaacga acatcccggt gctaggggtg
      121 caggaggagg acggcagcaa ccgcagcagc agccttcagg taataataga cgtggatgga
      181 atacaactag ccagagatat tccaatgtca tccagccatc cagtttctcc aaatccacac
      241 catggggggg cagcagagat caagaaaagc catatttcag ttcttttgat tctggagctt
      301 caactaacag gaaggaaggc tttggattgt ctgagaaccc atttgcttca cttagtcctg
      361 atgagcagaa agatgaaaag aaacttctgg aaggaattgt aaaagatatg gaggtttggg
      421 aatcatcagg gcagtggatg ttttctgttt attcaccagt gaaaaagaaa cctaatattt
      481 caggttttac agacatttca ccagaggaat tgaggcttga ataccataac ttcttaacca
      541 gcaataactt acagagttat ctaaattctg tccaacgttt aataaatcaa tggaggaaca
      601 gggtaaatga actgaaaagt ctaaatatat caactaaagt agctttgctc tctgatgtaa
      661 aggatggagt aaatcaagca gcacctgcat ttggatttgg cagcagtcaa gcagcaacat
      721 ttatgtcgcc aggctttcca gtcaataaca gcagcagtga taatgctcag aactttagtt
      781 ttaaaacaaa ctctggattt gctgctgcct cttctggaag ccctgctggt tttgggagtt
      841 ccccagcatt tggagctgca gcctctacca gttcaggtat ctctacttct gctccagctt
      901 ttggatttgg gaagcctgaa gtcacatcgg ctgcatcatt ttcattcaaa agccctgcag
      961 cttccagttt tggatcacct ggattttcag gacttccagc ttccttggca acaggtcctg
     1021 tcagagctcc agtggcccca gcctttggag gtggcagttc tgtggctggt tttggtagtc
     1081 cgggctcaca ttctcacact gctttttcta agccatccag tgacactttt ggaaatagca
     1141 gcatatccac ttctctgtca gcctcaagca gcatcattgc aacagataat gtgttattca
     1201 cacccagaga taaactaaca gtagaagaac tggaacaatt tcaatccaag aaatttactc
     1261 tgggaaaaat tccattaaag cctccacctc tggaacttct aaatgtttaa aagggcaatt
     1321 ttaaatacaa aaaagaatga tgtttaaaat tgctttgagt gattcataca gagatgtata
     1381 tatgcataca tgtatatatt cataaggaat ataagcttcc atcaatagtg attttaaatt
     1441 tgattttttt cttaactcta aatatttaag taaaaagtaa caaaaactct gcaagcaagg
     1501 gaattttttt gtactgtaat tttgaatgga actgaaaaat tatgcacgaa taaagtactt
     1561 ttctcatgcc a
//
