LOCUS       NM_001164412            3288 bp    mRNA    linear   ROD 02-MAY-2024
DEFINITION  Mus musculus CCR4-NOT transcription complex, subunit 4 (Cnot4),
            transcript variant 4, mRNA.
ACCESSION   NM_001164412
VERSION     NM_001164412.2
KEYWORDS    RefSeq.
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 3288)
  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 3288)
  AUTHORS   Dai,X.X., Jiang,Y., Gu,J.H., Jiang,Z.Y., Wu,Y.W., Yu,C., Yin,H.,
            Zhang,J., Shi,Q.H., Shen,L., Sha,Q.Q. and Fan,H.Y.
  TITLE     The CNOT4 Subunit of the CCR4-NOT Complex is Involved in mRNA
            Degradation, Efficient DNA Damage Repair, and XY Chromosome
            Crossover during Male Germ Cell Meiosis
  JOURNAL   Adv Sci (Weinh) 8 (10), 2003636 (2021)
   PUBMED   34026442
  REMARK    GeneRIF: The CNOT4 Subunit of the CCR4-NOT Complex is Involved in
            mRNA Degradation, Efficient DNA Damage Repair, and XY Chromosome
            Crossover during Male Germ Cell Meiosis.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 3288)
  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 3288)
  AUTHORS   Perez-Garcia,V., Fineberg,E., Wilson,R., Murray,A., Mazzeo,C.I.,
            Tudor,C., Sienerth,A., White,J.K., Tuck,E., Ryder,E.J., Gleeson,D.,
            Siragher,E., Wardle-Jones,H., Staudt,N., Wali,N., Collins,J.,
            Geyer,S., Busch-Nentwich,E.M., Galli,A., Smith,J.C., Robertson,E.,
            Adams,D.J., Weninger,W.J., Mohun,T. and Hemberger,M.
  TITLE     Placentation defects are highly prevalent in embryonic lethal mouse
            mutants
  JOURNAL   Nature 555 (7697), 463-468 (2018)
   PUBMED   29539633
REFERENCE   5  (bases 1 to 3288)
  AUTHORS   Yokoyama,S., Ito,Y., Ueno-Kudoh,H., Shimizu,H., Uchibe,K.,
            Albini,S., Mitsuoka,K., Miyaki,S., Kiso,M., Nagai,A., Hikata,T.,
            Osada,T., Fukuda,N., Yamashita,S., Harada,D., Mezzano,V., Kasai,M.,
            Puri,P.L., Hayashizaki,Y., Okado,H., Hashimoto,M. and Asahara,H.
  TITLE     A systems approach reveals that the myogenesis genome network is
            regulated by the transcriptional repressor RP58
  JOURNAL   Dev Cell 17 (6), 836-848 (2009)
   PUBMED   20059953
REFERENCE   6  (bases 1 to 3288)
  AUTHORS   Blackshaw,S., Harpavat,S., Trimarchi,J., Cai,L., Huang,H.,
            Kuo,W.P., Weber,G., Lee,K., Fraioli,R.E., Cho,S.H., Yung,R.,
            Asch,E., Ohno-Machado,L., Wong,W.H. and Cepko,C.L.
  TITLE     Genomic analysis of mouse retinal development
  JOURNAL   PLoS Biol 2 (9), E247 (2004)
   PUBMED   15226823
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC140110.2.
            
            On Aug 13, 2022 this sequence version replaced NM_001164412.1.
            
            Transcript Variant: This variant (4) lacks an in-frame exon in the
            3' coding region, compared to variant 1. The encoded isoform (4) is
            shorter than isoform 1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC048243.1, SRR17784650.1319347.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164135, SAMN01164138
                                           [ECO:0000348]
            ##Evidence-Data-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-210               AC140110.2         159251-159460       c
            211-476             AC140110.2         105710-105975       c
            477-674             AC140110.2         103730-103927       c
            675-761             AC140110.2         95966-96052         c
            762-863             AC140110.2         95119-95220         c
            864-989             AC140110.2         94337-94462         c
            990-1114            AC140110.2         90647-90771         c
            1115-1172           AC140110.2         81960-82017         c
            1173-1422           AC140110.2         78591-78840         c
            1423-1920           AC140110.2         76811-77308         c
            1921-3288           AC140110.2         47814-49181         c
FEATURES             Location/Qualifiers
     source          1..3288
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="6"
                     /map="6 15.2 cM"
     gene            1..3288
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /note="CCR4-NOT transcription complex, subunit 4"
                     /db_xref="GeneID:53621"
                     /db_xref="MGI:MGI:1859026"
     exon            1..210
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     exon            211..476
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     CDS             303..2222
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /EC_number="2.3.2.27"
                     /note="isoform 4 is encoded by transcript variant 4;
                     negative regulator of transcription 4; E3
                     ubiquitin-protein ligase CNOT4; CCR4-associated factor 4;
                     transcriptional repressor NOT4Hp; potential
                     transcriptional repressor NOT4Hp; RING-type E3 ubiquitin
                     transferase CNOT4"
                     /codon_start=1
                     /product="CCR4-NOT transcription complex subunit 4 isoform
                     4"
                     /protein_id="NP_001157884.1"
                     /db_xref="CCDS:CCDS80519.1"
                     /db_xref="GeneID:53621"
                     /db_xref="MGI:MGI:1859026"
                     /translation="MSRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHR
                     IRTDENGLCPACRKPYPEDPAVYKPLSQEELQRIKNEKKQKQNERKQKISENRKHLAS
                     VRVVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAY
                     VTYIRSEDALRAIQCVNNVVVDGRTLKASLGTTKYCSYFLKNMQCPKPDCMYLHELGD
                     EAASFTKEEMQAGKHQEYEQKLLQELYKLNPNFLQLSTGSVDKNKNKVTPLQSPIDKP
                     SDSLSIGNGDNSQQISNSDTPSPPPGLSKSNPVIPISSSNHSARSPFEGAVTESQSLF
                     SDNFRHPNPIPSGLPPFPSSPQTPSDWPTAPEPQSLFTSETIPVSSSTDWQAAFGFGS
                     SKQPEDDLGFDPFDVTRKALADLIEKELSVQDQPSLSPTSLQNASSHTTTAKGPGSGF
                     LHSAAPTNANSLNSTFSVLPQRFPQFQQHRAVYNSFGFPGQAARYPWMAFPRNSIMHL
                     NHTANPTSNSNFLDLNLPPQHNTGLGGIPIAGIPASSGNTLDSIQDDNPPHWLKSLQA
                     LTEMDGPSAASSQPHHSAPFSTQIPLHRASWNPYPPPSNPSSFHSPPPGFQTAFRPPS
                     KTPTDLLQSSTLDRH"
     exon            477..674
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     exon            675..761
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     exon            762..863
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     exon            864..989
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     exon            990..1114
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     exon            1115..1172
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     exon            1173..1422
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     exon            1423..1920
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     exon            1921..3288
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3264..3269
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /note="hexamer: AATAAA"
     polyA_site      3288
                     /gene="Cnot4"
                     /gene_synonym="Not4; Not4h; Not4hp"
                     /note="major polyA site"
ORIGIN      
        1 gagtcttacc ctaatgtaag atggtggccc gtctagccgt ggaacccacc gaaagctgag
       61 agtctctctc tcagccgtaa aggtcggact cactgaagca gtcaggcccg gttctgaaga
      121 gttttttcgc cgactctcgt tcattggtct cctgtgagga ctcggcaacg cgtggagtcg
      181 gctaagagaa aagcgaggca aggcaggcgg gtcttcagag ttctatattt tagctctcag
      241 tgctgaatta ccttctccct taaattatta taaacttttg ctgctgtcat ataaacgtga
      301 agatgtctcg cagtcctgat gcaaaggaag accctgtgga atgccctctt tgcatggagc
      361 ccttggaaat agatgatatt aactttttcc cttgcacctg tggctaccag atatgccgat
      421 tttgttggca tcgaattcgc actgatgaga atgggctttg tcctgcatgt agaaaaccat
      481 atccagaaga tccagcagtt tacaaaccac tttcccagga agaattacaa aggataaaga
      541 atgagaaaaa acagaaacaa aatgaaagaa aacagaaaat ctcagaaaat agaaaacatt
      601 tggctagtgt acgtgttgta caaaaaaacc ttgtgtttgt tgtaggtctg tcacagcgcc
      661 tagcagaccc agaagtttta aaacgaccag agtattttgg gaagtttggt aaaatacata
      721 aagttgtcat caataatagc acatcctatg caggctcaca gggtccgagt gccagtgctt
      781 atgtaacgta tatccggtca gaagatgctc tcagagcaat acagtgtgtc aacaatgtgg
      841 tagtagatgg caggacacta aaggcatctt taggtacaac aaagtactgc agttatttct
      901 taaagaacat gcagtgccca aagcctgact gcatgtatct tcatgaattg ggagatgagg
      961 cagccagctt cacaaaagag gaaatgcagg cgggtaagca ccaagaatat gaacagaagc
     1021 tcctccaaga attatataaa ttaaatccca attttcttca gctatctacg ggttcagttg
     1081 ataagaataa gaacaaagtg acaccattac aaagccccat tgacaaacct tcagattctc
     1141 tcagtatagg gaatggtgat aattcccaac agatatctaa cagtgatacg ccttcaccac
     1201 cacctggttt atcaaaatcc aaccctgtca tccccatcag ttcatccaat cacagtgcga
     1261 ggtctccttt tgaaggggca gtaacagagt cacagtcatt attctcagac aattttcgcc
     1321 accccaaccc tataccaagt gggcttcctc cttttcccag ctctccacag acacccagtg
     1381 attggcctac agctccagaa ccacagagcc tcttcacatc agaaacaatc ccagtttcat
     1441 catctacaga ctggcaagca gcattcggct ttggttcttc taaacaacca gaggatgact
     1501 tggggtttga cccctttgat gtcactcgaa aagccttagc agacctgatt gagaaggaac
     1561 tatccgtcca agatcaacct tccctttccc ccacatctct tcagaacgcc tcctcacaca
     1621 ctacgaccgc caaagggcca ggctctggat tcctgcactc tgctgcacct acaaatgcca
     1681 actctctcaa tagtaccttt tcagtcttgc cacagaggtt ccctcaattt cagcagcacc
     1741 gagcagttta taattcgttc ggttttccag gccaggcagc ccgctatcct tggatggcct
     1801 ttccacgcaa tagcatcatg cacttgaacc acacagcaaa ccccacctca aatagtaatt
     1861 tcttggactt gaatctcccg ccacagcaca acacaggtct gggagggatc cccatagcag
     1921 gtattccagc atcttcagga aacactttag actctattca agacgacaat cctccacact
     1981 ggctaaaatc cctacaggcc ctcacagaga tggacggccc cagcgctgcc tcgtcacaac
     2041 cccatcacag cgcccccttc agcacacaga tccctctgca cagagccagt tggaacccct
     2101 acccacctcc ttcaaatccc tccagcttcc actctccacc cccaggcttc cagacagcct
     2161 tcagaccccc cagcaaaacc cccacagatc tgctacagag ttccacactg gaccgccact
     2221 aagcaaagag ggaattgaaa agggcaggat ttgtcccacc ctgttccccc tcagcccact
     2281 cacagctccc ttctcatctc ttaacgttct gaagaatcca gctcctggtc gggttttttt
     2341 ctccctaccc ccagatacga tgcgatcaca gcgtctttac catcttttct ttcattgtaa
     2401 aaagtttcgg ttgatccagc atttgagtga gtgacactgt tgaatgtttc tggggggcag
     2461 gaattgcctt tttaagcaga ggaaaaagaa aatcaaaagg cagtctcaat acttagaaaa
     2521 ttactgtttg tctgtcgctc ataatgacat aatctgctta gcagaaaatg acaattaatc
     2581 tataggaaag gtcaagtaaa tgcattgtca actgcagaac tgagagcacg gccgacttaa
     2641 atgagattgc taagttcatg ggggaaagca gtggtcctgg cttccatctt gtattcaact
     2701 tttcactatt gcaggaaaaa tgcttttcat tttaaattct ttattgaatt gatagggagg
     2761 actcaattgt gttgttaagc aaagggattt attggaagtt gatgagaaga taaattgatc
     2821 tgtagtcgta actggcctac tgctaaagag tttataagga aggaaaagta attttttaag
     2881 gagaaaaaat tttggcttta gacttaaatt cagatgtttt aaaggaaaaa gatattcaca
     2941 gattcaatac ctatccttat aagagctgaa ttctatgtga tttcctcagt ctttctcctc
     3001 tgtcagaatc tttttttttt ctttgaccat aagtccacct gacagggcac tctgagccag
     3061 cactgctctg gggccatcag atcaccaaca gaagcaaatc tctgacctct ttgcctgcag
     3121 cttttactta accctgtagt ttctggacgt ttgtgcagta ttgaaaagac aggagaaaag
     3181 aaaacaaacc tggttataac ctgatgctaa aactaaaaac aaggaaatgt acctctctct
     3241 tcagaattaa aactaaaatc ttaaataaaa cagaaaactt gatggtga
//
