LOCUS       NM_001195023            4685 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus NPL4 homolog, ubiquitin recognition factor (Nploc4),
            transcript variant A, mRNA.
ACCESSION   NM_001195023
VERSION     NM_001195023.1
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 4685)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 4685)
  AUTHORS   Choquet,H., Melles,R.B., Anand,D., Yin,J., Cuellar-Partida,G.,
            Wang,W., Hoffmann,T.J., Nair,K.S., Hysi,P.G., Lachke,S.A. and
            Jorgenson,E.
  CONSRTM   23andMe Research Team
  TITLE     A large multiethnic GWAS meta-analysis of cataract identifies new
            risk loci and sex-specific effects
  JOURNAL   Nat Commun 12 (1), 3595 (2021)
   PUBMED   34127677
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 4685)
  AUTHORS   Ingham,N.J., Pearson,S.A., Vancollie,V.E., Rook,V., Lewis,M.A.,
            Chen,J., Buniello,A., Martelletti,E., Preite,L., Lam,C.C.,
            Weiss,F.D., Powis,Z., Suwannarat,P., Lelliott,C.J., Dawson,S.J.,
            White,J.K. and Steel,K.P.
  TITLE     Mouse screen reveals multiple new genes underlying mouse and human
            hearing loss
  JOURNAL   PLoS Biol 17 (4), e3000194 (2019)
   PUBMED   30973865
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 4685)
  AUTHORS   Shimizu,S., Fujita,H., Sasaki,Y., Tsuruyama,T., Fukuda,K. and
            Iwai,K.
  TITLE     Differential Involvement of the Npl4 Zinc Finger Domains of SHARPIN
            and HOIL-1L in Linear Ubiquitin Chain Assembly Complex-Mediated
            Cell Death Protection
  JOURNAL   Mol Cell Biol 36 (10), 1569-1583 (2016)
   PUBMED   26976635
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 4685)
  AUTHORS   Zhang,Z., Wang,Y., Li,C., Shi,Z., Hao,Q., Wang,W., Song,X.,
            Zhao,Y., Jiao,S. and Zhou,Z.
  TITLE     The Transitional Endoplasmic Reticulum ATPase p97 Regulates the
            Alternative Nuclear Factor NF-kappaB Signaling via Partial
            Degradation of the NF-kappaB Subunit p100
  JOURNAL   J Biol Chem 290 (32), 19558-19568 (2015)
   PUBMED   26112410
  REMARK    GeneRIF: The study revealed a regulatory role of the p97-Npl4-Ufd1
            complex in regulating a partial degradation of the NF-kappaB
            subunit p100.
REFERENCE   6  (bases 1 to 4685)
  AUTHORS   Bebeacua,C., Forster,A., McKeown,C., Meyer,H.H., Zhang,X. and
            Freemont,P.S.
  TITLE     Distinct conformations of the protein complex p97-Ufd1-Npl4
            revealed by electron cryomicroscopy
  JOURNAL   Proc Natl Acad Sci U S A 109 (4), 1098-1103 (2012)
   PUBMED   22232657
REFERENCE   7  (bases 1 to 4685)
  AUTHORS   Isaacson,R.L., Pye,V.E., Simpson,P., Meyer,H.H., Zhang,X.,
            Freemont,P.S. and Matthews,S.
  TITLE     Detailed structural insights into the p97-Npl4-Ufd1 interface
  JOURNAL   J Biol Chem 282 (29), 21361-21369 (2007)
   PUBMED   17491009
  REMARK    GeneRIF: structural analysis of the p97-Npl4-Ufd1 interface
REFERENCE   8  (bases 1 to 4685)
  AUTHORS   Alzayady,K.J., Panning,M.M., Kelley,G.G. and Wojcikiewicz,R.J.
  TITLE     Involvement of the p97-Ufd1-Npl4 complex in the regulated
            endoplasmic reticulum-associated degradation of inositol
            1,4,5-trisphosphate receptors
  JOURNAL   J Biol Chem 280 (41), 34530-34537 (2005)
   PUBMED   16103111
  REMARK    GeneRIF: the p97-Ufd1-Npl4 complex couples ubiquitinated IP(3)
            receptors to proteasomal degradation and, thus, plays a key role in
            IP(3) receptor processing
REFERENCE   9  (bases 1 to 4685)
  AUTHORS   Ye,Y., Meyer,H.H. and Rapoport,T.A.
  TITLE     Function of the p97-Ufd1-Npl4 complex in retrotranslocation from
            the ER to the cytosol: dual recognition of nonubiquitinated
            polypeptide segments and polyubiquitin chains
  JOURNAL   J Cell Biol 162 (1), 71-84 (2003)
   PUBMED   12847084
REFERENCE   10 (bases 1 to 4685)
  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
            AL669855.20 and AK149912.1.
            
            Transcript Variant: This variant (A) represents the longer
            transcript and encodes the longer isoform (A).
            
            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.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK149823.1, AK129375.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164139, SAMN01164142
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-3                 AL669855.20        99503-99505         c
            4-417               AK149912.1         3-416
            418-418             AL669855.20        83325-83325         c
            419-1007            AK149912.1         418-1006
            1008-1008           AL669855.20        75378-75378         c
            1009-3172           AK149912.1         1008-3171
            3173-4685           AL669855.20        41603-43115         c
FEATURES             Location/Qualifiers
     source          1..4685
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="11"
                     /map="11 84.09 cM"
     gene            1..4685
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /note="NPL4 homolog, ubiquitin recognition factor"
                     /db_xref="GeneID:217365"
                     /db_xref="MGI:MGI:2679787"
     exon            1..202
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     CDS             188..2014
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /note="isoform A is encoded by transcript variant A;
                     nuclear protein localization protein 4 homolog; nuclear
                     protein localization 4 homolog"
                     /codon_start=1
                     /product="nuclear protein localization protein 4 homolog
                     isoform A"
                     /protein_id="NP_001181952.1"
                     /db_xref="CCDS:CCDS56827.1"
                     /db_xref="GeneID:217365"
                     /db_xref="MGI:MGI:2679787"
                     /translation="MAESIIIRVQSPDGVKRITATKRETAATFLKKVAKEFGFQNNGF
                     SVYINRNKTGEITASSSKSLHLLKIKHGDLLFLFPSSLAGPSSEMETSTSVGLKAFGA
                     PNVVEDEIDQYLSKQDGKIYRSRDPQLCRHGPLGKCVHCVPLEPFDEDYLNHLEPPVK
                     HMSFHAYIRKLTGGADKGKFVALENISCKIKSGCEGHLPWPNGICTKCQPSAITLNRQ
                     KYRHVDNIMFENHTVADRFLDFWRKTGNQHFGYLYGRYTEHKDIPLGIRAEVAAIYEP
                     PQIGTQNSLELLEDPKAEVVDEIAAKLGLRKVGWIFTDLVSEDTRKGTVRYSRNKDTY
                     FLSSEECITAGDFQNKHPNICRLSPDGHFGSKFVTAVATGGPDNQVHFEGYQVSNQCM
                     ALVRDECLLPCKDAPELGYAKESSSEQYVPDVFYKDIDKFGNEITQLARPLPVEYLII
                     DITTTFPKDPVYTFSISQNPFPIENRDVLGETQDFHSLATYLSQNTSSVFLDTISDFH
                     LLLFLVTNEVMPLQDSISLLLEAVRTRNEELAQTWKKSEQWATIEQLCSTVGVQLPGL
                     HEFGAVGGSARAATSAMWACQHCTFMNQPGTGHCEMCSLPRT"
     exon            203..283
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            284..396
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            397..573
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            574..622
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            623..717
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            718..841
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            842..1021
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            1022..1108
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            1109..1180
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            1181..1307
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            1308..1468
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            1469..1540
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            1541..1636
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            1637..1753
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            1754..1856
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     exon            1857..4685
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3666..3671
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /note="hexamer: AAGAAA"
     polyA_site      3692
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /note="major polyA site"
     regulatory      4093..4098
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /note="hexamer: AATAAA"
     polyA_site      4113
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /note="major polyA site"
     regulatory      4363..4368
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /note="hexamer: GATAAA"
     polyA_site      4384
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
     regulatory      4509..4514
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /note="hexamer: AATAAA"
     polyA_site      4549
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
     regulatory      4666..4671
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
                     /note="hexamer: ATTAAA"
     polyA_site      4685
                     /gene="Nploc4"
                     /gene_synonym="mKIAA1499; Npl4"
ORIGIN      
        1 ggcggagtgt gttgagcgaa gcaccggaca tcggcactgg cggagccggg cggcgaagct
       61 ggagcggcgg tggcggcggc ggcgggaggc cggggccggg gctgaggccg aggccggggc
      121 tgcgaggccc ttggggagac aggcggcggg agcccggggc ccgagcccgg agactggagc
      181 ggccgccatg gccgagagca tcataatccg tgtccagtcc cctgatggcg tgaagaggat
      241 cacagctacg aagagagaga cggctgccac cttcctgaaa aaggttgcaa aggagtttgg
      301 cttccaaaac aacggcttct cagtttacat caatagaaac aagactggag agataacagc
      361 atcgtccagc aaatccctcc atttgctaaa aatcaagcat ggcgatttgt tgttcctgtt
      421 tccctcaagc cttgctggac cctcgtctga aatggaaaca tcgacctcgg tagggttaaa
      481 ggcctttggt gctcctaacg tggttgaaga tgagatcgat caatacctca gcaagcagga
      541 tgggaagatt taccggagcc gagacccaca gctatgccgc catggtccct tgggcaagtg
      601 tgtgcattgt gtcccactgg agccatttga tgaggactat ctgaaccact tggagcctcc
      661 tgtgaagcac atgtccttcc atgcctacat ccggaagctg actggagggg ctgacaaggg
      721 taagtttgtt gccctggaga acatcagctg caagattaag tcagggtgtg agggacacct
      781 cccatggcca aatggtatct gcaccaaatg ccagcccagt gccatcacgc tgaacagaca
      841 gaaataccga cacgtggaca acatcatgtt tgagaatcat actgttgctg accgcttcct
      901 tgacttctgg agaaagaccg gaaaccagca ttttgggtac ttatacggac ggtacacaga
      961 gcacaaggac attcccctcg gcatcagggc tgaagtggct gcaatttacg agcctcctca
     1021 gattggtaca cagaacagtc tggagcttct ggaagacccg aaagctgagg tggttgacga
     1081 gattgccgcc aaacttggcc tgaggaaggt tggatggata ttcacggacc ttgtctcaga
     1141 agacacccga aagggtacag tccgatacag tcggaataag gacacctatt tcctgagttc
     1201 agaagaatgc atcactgcag gagactttca aaacaagcac cccaacattt gccggctctc
     1261 tcccgatggt cattttggat ccaagtttgt tactgcagtg gccacaggtg gtcctgacaa
     1321 ccaggttcac tttgaagggt accaggtatc caatcagtgc atggcactag tccgagatga
     1381 gtgtcttcta ccttgtaagg atgcccctga gcttggctat gctaaggagt ccagcagtga
     1441 gcagtatgtt cctgatgtgt tttataagga catagacaag tttggcaatg agatcaccca
     1501 gctggcccgt cccctgcctg tggagtatct catcatagat atcacaacca ccttccccaa
     1561 ggatccagtt tacacttttt ctatttctca aaatccgttt cctatcgaaa accgggatgt
     1621 actgggtgaa acacaggact tccatagttt ggccacctac ttgtcccaga atacctcatc
     1681 cgtgttcttg gataccattt ccgacttcca tctcctgctg tttctggtca ccaatgaagt
     1741 catgccgctg caggacagta tcagcctgct gctagaagcc gtgaggacca gaaatgagga
     1801 gctagcacag acatggaaaa agtctgaaca gtgggccacc attgagcagt tatgcagcac
     1861 cgttggtgtg cagctcccag gcctccacga gtttggtgca gtcgggggct ctgcacgcgc
     1921 tgctacctct gccatgtggg cctgtcagca ctgcaccttc atgaaccaac ctggcacagg
     1981 ccactgcgag atgtgcagcc tcccccggac ctagggctct gggcctctgc tgcatgggac
     2041 tgggccagcc cagccctctg aagtctggag cgccacatgt tccctataag gcctgaagcc
     2101 cacagccctg aaacagtggg gccagctgcc ctggtattcc agataccctg aagcgtctcc
     2161 gtgcagatct tgaagagaaa gaacctcggc tgctgtgctg gggttgaaca gagcctccca
     2221 cctgggaagg cagagcagac ctgcccaaga gctccccaca cgcctcacgt gttggaggga
     2281 ctgaacacgt ccagccaatc acctgaaatt ggggtgtaca gagagggtgc tgctgtcacc
     2341 cagctatctc tccttcctct atgatctttg ttttctgcct tcccaccttc tcccccagtg
     2401 ttcggatgaa tgttcctggc tgtctctgtt cccttgctgt ggggctgtgt ccctcctttg
     2461 ggagcatgtg tggctagggt gtggcagcct ttgtctgaca tgcagtatag taggtccctg
     2521 acctttactt gcctgaaatc agcagttatc aataattccc acccaggaaa cttttattta
     2581 ttgtttttta aagataaaac tgcacagatg ggagtgagag atttacctct gctccttcct
     2641 ccttcagtgc agcccctctt gggtggttta ttgggcagga ggccaccatc atttctcctc
     2701 agaagcaaac ctcagtgcct gagactttcc tgccacgctg cagacagtgg cagttggtag
     2761 catgggtggt tcatcagagc agtggtggct cttgcctggc agtcagcccc ttcaagtctg
     2821 gacagccctg gagttctggt cccctctcct agcactgtac ctttacccag cgagtcccca
     2881 cactgtggtc ttcttgcaca gtgtgtggca gttgagaaag cctagaaaag gtgcccattt
     2941 gaccactgtg aggcaaatag aaacagtccc taagggtcct atgtggctgt gttgtgacag
     3001 cccttaccca ggtaagagat ggatgtcgtg atgcctcgtt gccttaatga gagctgagtc
     3061 agctgtcctt caccctggga aagtccatgc cagctgtgga ctgctgggag ccatgtttgt
     3121 caccttagta gaatgcacca atgttccctt ctgcatctct ggccctgtgg acagaacact
     3181 tattgctagg ttatctatcg tgtggcaggg ctggccagca ccgttgggtc tcacctggca
     3241 tgagatctga agctaaagcc ctgggactgt ggagccattg ggcttggttt ggtattgaca
     3301 gggtcatcct gaggggttag cagtggtaga gagcaaggca agtgatctct ccagctacct
     3361 gccagcagta gagagagaga gagagagtgc tgagggctgg tagtgtctct ggctagggct
     3421 tcacctttcg gttttttgtt ttttgttttt tctggtccct gagtctggca tttctgtctg
     3481 tgacttagct atgtttctga tgccaatcac actagcacca ttacatgctg ggcaggtgct
     3541 gggcagcaca gacgctggag acctgtttgc cactgcttgt cccccattca tctttgtcta
     3601 caaagttaat tacgttctca tgttctggca tccacataat tcttgttttc tctgacttat
     3661 agctaaagaa atttttgtgg tttctctgct tatggttttg agttactctt tgttcagtaa
     3721 tgcactttat tttattgtcc aaagagagtc aagctaaagc taccaccttg gggtgagccc
     3781 tacagaaggt tcagacccgg gcagctcagc tacctccttc tacatggagg tggccctggt
     3841 cccacctcta atccctactg tcatcaggca ctacagccca aaaagaggtg cttgtgagca
     3901 cacccaccca agtgaaccca gtggctgcca tggtcctctt caggctcaga gatgggtcta
     3961 gccctggcct tgctctgatc agcctgctcc tggggcatgg gtgctcccgc ttctgctctg
     4021 cttgggctca caggtatgca ctggctgggt gtggatgagt atttttctga ccccagccct
     4081 gcagtggaac ctaataaaag cacctgaagc gattgtcctg ctcccagtgc attgttcctg
     4141 tgcccagaac cacagtccac cggtgtggca tggatgtgtt gccttgtaag gacagtcctg
     4201 agtgttagaa cctggtgtgc agaagataaa ctgacgatgc ttccaaccct ggaggtgact
     4261 ccgatgctgc aaagaattca tctcccactt gtttccactc aaggtgtctt cagagcagcc
     4321 tggggcttgg gctcagatct gtttcagaga ccactcagaa atgataaaat aggtccaggc
     4381 ttcacccttg ggttaaagtt ggtttttgtt tttttgtttt cacttaattt acagctgggc
     4441 atagtggtct gtgcctttat tcccagtact ctggaagcac agacaggcta caactataaa
     4501 gcctaagaaa taaatatttg gggctggggg gtgtccagtt ccagacagag ctttttgttt
     4561 tttgttttgt tttgttttca taagcgttgc tgttgtagaa ctagctttgt agaccagcct
     4621 ggccttgaac tcagatccac ctgcctctgc ctcctgagtg ctgggattaa aggtgtatac
     4681 cacca
//
