LOCUS       NM_001393878            5685 bp    mRNA    linear   ROD 12-JUN-2024
DEFINITION  Rattus norvegicus CCR4-NOT transcription complex, subunit 6
            (Cnot6), transcript variant 1, mRNA.
ACCESSION   NM_001393878 XM_039085375
VERSION     NM_001393878.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 5685)
  AUTHORS   Wahle,E. and Winkler,G.S.
  TITLE     RNA decay machines: deadenylation by the Ccr4-not and Pan2-Pan3
            complexes
  JOURNAL   Biochim Biophys Acta 1829 (6-7), 561-570 (2013)
   PUBMED   23337855
REFERENCE   2  (bases 1 to 5685)
  AUTHORS   Mittal,S., Aslam,A., Doidge,R., Medica,R. and Winkler,G.S.
  TITLE     The Ccr4a (CNOT6) and Ccr4b (CNOT6L) deadenylase subunits of the
            human Ccr4-Not complex contribute to the prevention of cell death
            and senescence
  JOURNAL   Mol Biol Cell 22 (6), 748-758 (2011)
   PUBMED   21233283
REFERENCE   3  (bases 1 to 5685)
  AUTHORS   Marchese,F.P., Aubareda,A., Tudor,C., Saklatvala,J., Clark,A.R. and
            Dean,J.L.
  TITLE     MAPKAP kinase 2 blocks tristetraprolin-directed mRNA decay by
            inhibiting CAF1 deadenylase recruitment
  JOURNAL   J Biol Chem 285 (36), 27590-27600 (2010)
   PUBMED   20595389
REFERENCE   4  (bases 1 to 5685)
  AUTHORS   Piao,X., Zhang,X., Wu,L. and Belasco,J.G.
  TITLE     CCR4-NOT deadenylates mRNA associated with RNA-induced silencing
            complexes in human cells
  JOURNAL   Mol Cell Biol 30 (6), 1486-1494 (2010)
   PUBMED   20065043
REFERENCE   5  (bases 1 to 5685)
  AUTHORS   Ghosh,D., Lippert,D., Krokhin,O., Cortens,J.P. and Wilkins,J.A.
  TITLE     Defining the membrane proteome of NK cells
  JOURNAL   J Mass Spectrom 45 (1), 1-25 (2010)
   PUBMED   19946888
REFERENCE   6  (bases 1 to 5685)
  AUTHORS   Lau,N.C., Kolkman,A., van Schaik,F.M., Mulder,K.W., Pijnappel,W.W.,
            Heck,A.J. and Timmers,H.T.
  TITLE     Human Ccr4-Not complexes contain variable deadenylase subunits
  JOURNAL   Biochem J 422 (3), 443-453 (2009)
   PUBMED   19558367
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 5685)
  AUTHORS   Miyasaka,T., Morita,M., Ito,K., Suzuki,T., Fukuda,H., Takeda,S.,
            Inoue,J., Semba,K. and Yamamoto,T.
  TITLE     Interaction of antiproliferative protein Tob with the CCR4-NOT
            deadenylase complex
  JOURNAL   Cancer Sci 99 (4), 755-761 (2008)
   PUBMED   18377426
REFERENCE   8  (bases 1 to 5685)
  AUTHORS   Garapaty,S., Mahajan,M.A. and Samuels,H.H.
  TITLE     Components of the CCR4-NOT complex function as nuclear hormone
            receptor coactivators via association with the NRC-interacting
            Factor NIF-1
  JOURNAL   J Biol Chem 283 (11), 6806-6816 (2008)
   PUBMED   18180299
REFERENCE   9  (bases 1 to 5685)
  AUTHORS   Chang,T.C., Yamashita,A., Chen,C.Y., Yamashita,Y., Zhu,W.,
            Durdan,S., Kahvejian,A., Sonenberg,N. and Shyu,A.B.
  TITLE     UNR, a new partner of poly(A)-binding protein, plays a key role in
            translationally coupled mRNA turnover mediated by the c-fos major
            coding-region determinant
  JOURNAL   Genes Dev 18 (16), 2010-2023 (2004)
   PUBMED   15314026
REFERENCE   10 (bases 1 to 5685)
  AUTHORS   Chen,J., Chiang,Y.C. and Denis,C.L.
  TITLE     CCR4, a 3'-5' poly(A) RNA and ssDNA exonuclease, is the catalytic
            component of the cytoplasmic deadenylase
  JOURNAL   EMBO J 21 (6), 1414-1426 (2002)
   PUBMED   11889047
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000010.1.
            
            On Mar 19, 2021 this sequence version replaced XM_039085375.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643293.62326.1,
                                           SRR26360181.3306739.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760389 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-217               JAXUCZ010000010.1  34531910-34532126   c
            218-280             JAXUCZ010000010.1  34524350-34524412   c
            281-394             JAXUCZ010000010.1  34512561-34512674   c
            395-581             JAXUCZ010000010.1  34496963-34497149   c
            582-667             JAXUCZ010000010.1  34494826-34494911   c
            668-772             JAXUCZ010000010.1  34493445-34493549   c
            773-841             JAXUCZ010000010.1  34493284-34493352   c
            842-999             JAXUCZ010000010.1  34490973-34491130   c
            1000-1154           JAXUCZ010000010.1  34489826-34489980   c
            1155-1309           JAXUCZ010000010.1  34488948-34489102   c
            1310-1540           JAXUCZ010000010.1  34487590-34487820   c
            1541-1743           JAXUCZ010000010.1  34485765-34485967   c
            1744-5685           JAXUCZ010000010.1  34479894-34483835   c
FEATURES             Location/Qualifiers
     source          1..5685
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="10"
                     /map="10q21"
     gene            1..5685
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /note="CCR4-NOT transcription complex, subunit 6"
                     /db_xref="GeneID:287249"
                     /db_xref="RGD:1310783"
     exon            1..217
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            218..280
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            281..394
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     CDS             283..1956
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /EC_number="3.1.13.4"
                     /note="cytoplasmic deadenylase; carbon catabolite
                     repressor protein 4 homolog"
                     /codon_start=1
                     /product="CCR4-NOT transcription complex subunit 6"
                     /protein_id="NP_001380807.1"
                     /db_xref="GeneID:287249"
                     /db_xref="RGD:1310783"
                     /translation="MPKEKYEPPDPRRMYTIMSSEEAANGKKSHWAELEISGKVRSLS
                     SSLWSLTHLTALHLSDNSLSCIPSDIAKLHNLVYLDLSHNQIQSLPAELGNMVSLREL
                     HLNYNQLRVLPFELGKLFQLQTLSLKGNPLTQDILNLCLEPDGTRRLLNYLLDNLSGT
                     AKRISTEQPPPRSWIMLQEPDRTRPTALFSVMCYNVLCDKYATRQLYGYCPSWALNWD
                     YRKKAIIQEILSCNADIISLQEVETEQYYSFFLVELKERGYNGFFSPKSRARTMSEQE
                     RKHVDGCAIFFKTEKFTLVQKHTVEFNQLAMANSEGSEAMLNRVMTKDNIGVAVLLEL
                     RKELIEMSSGKPHLGTEKQLILVANAHMHWDPEYSDVKLVQTMMFLSEVKNIIDKASR
                     SLKSSVLGECGTIPLVLCADLNSLPDSGVVEYLSTGGVETNHKDFKELRYNESLTNFS
                     CNGKNGMTNGRITHGFKLKSAYENGLMPYTNYTFDFKGIIDYIFYSKPQLNTLAILGP
                     LDHHWLVENNISGCPHPLIPSDHFSLFAQLELLLPFLPQVNGIHLPGRR"
     exon            395..581
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            582..667
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            668..772
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            773..841
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            842..999
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            1000..1154
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            1155..1309
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            1310..1540
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            1541..1743
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
     exon            1744..5685
                     /gene="Cnot6"
                     /gene_synonym="CCR4; RGD1310783"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gaactgcctg gcattggact ccctgaagtc tgatccaggt tgacaaagtc aatgtgaacc
       61 aagctttcat tctcatctct tcgtgggttg gctttgctgc ctggacacct gcaggatccc
      121 cctcattggc agaccttcct taaaagaatg gctaagggaa gctctccaga actgaagaaa
      181 atggtagctg acccttctaa gaggaaaaca caatgagatc cctgagttgc ccggatagtg
      241 atccagaatg acctccaact ggagaagatc atccacaaag gcatgcccaa agaaaagtac
      301 gagccccctg accctcggag gatgtacaca attatgtcct ctgaggaagc agcaaatgga
      361 aagaaatcac attgggcaga gcttgaaata agtggaaaag taagaagctt aagctcatct
      421 ttgtggtcac taactcactt gacagctttg catctgagtg acaattccct gtcctgtatt
      481 ccttcagaca ttgccaagct tcacaatctg gtatatctgg acctgtccca taatcaaatc
      541 cagagtttac cggcagaact cggaaacatg gtatcactca gggagctcca tttaaattac
      601 aaccagttac gagttctacc ttttgagctg ggaaaactgt ttcagttgca gactttaagc
      661 ctgaaaggaa atccacttac ccaggatata ttgaacctct gtctggagcc agatggaaca
      721 agaaggctac tgaactactt gctcgataat ttgtcaggta ctgcaaaaag aatttcaaca
      781 gaacaaccac ctccaagatc ttggatcatg ttacaagaac cagacagaac aaggccaaca
      841 gccttgtttt ctgtcatgtg ctataatgtt ctttgtgata aatatgcgac ccggcagtta
      901 tacggctact gtccatcatg ggcactaaat tgggactaca ggaaaaaggc cattattcaa
      961 gaaattttga gctgcaatgc tgatattata agtcttcagg aagttgaaac agagcagtat
     1021 tacagttttt ttctggtaga actgaaagaa cgtggctata atggattctt tagtcctaag
     1081 tctcgagcta ggactatgtc tgaacaggaa agaaagcatg ttgatggctg tgcaatattc
     1141 ttcaagactg aaaaatttac tttggttcag aaacacacgg ttgaatttaa tcagctagca
     1201 atggcgaatt cagaagggtc tgaagctatg ttgaacagag tcatgacaaa ggataacatt
     1261 ggagttgccg tactgctaga acttcgaaag gaattgattg aaatgtcatc tggaaaacca
     1321 catctgggaa cagaaaaaca acttattctt gtggctaatg ctcatatgca ttgggaccct
     1381 gaatactcag acgtgaagtt ggtgcaaact atgatgttcc tttcagaagt gaagaatatt
     1441 attgataaag cctctcggag cctcaaatcc agtgtattgg gagaatgtgg aactattcca
     1501 cttgtgttat gtgcagatct gaattctttg ccagactctg gtgttgtaga gtatttgagc
     1561 actggtgggg tagaaacaaa tcataaagac tttaaggaac tgagatacaa tgaaagtctt
     1621 acaaacttca gctgcaatgg gaagaatggg atgaccaatg gaagaatcac acatggtttc
     1681 aagttaaaga gtgcctatga gaatggcctg atgccttaca cgaattacac atttgatttc
     1741 aagggtataa ttgactacat cttctattct aaacctcagc tgaatacttt agccatcctg
     1801 ggacctctgg accaccattg gctagttgag aataacatca gcggctgccc acatccactt
     1861 attccctccg accacttctc actttttgca caattggagc tcttactgcc tttcctgccc
     1921 caagttaatg gcattcacct tcctggcagg aggtagtcat gtactttcag aggacctcag
     1981 atttacttgt aaactcgtga aaatctaaat ataggggagt gaggtatggc cactagggat
     2041 ttttctcaat gatcatttgg attttcagtc tggttatttg ataaaggata tagtatgaaa
     2101 gccaggtgct agcaacagac agattctgag cccagtgtac ttcatatact gctagacagg
     2161 gactggtgtg tttacaccta tcttttaatt tgttacaaat aattttcctg tttcttctct
     2221 ccaatgtgta ttgtcatgcc ttgaaatagg aagatgtgtg aacagtgtgt gtttgcacag
     2281 aagtccacag cactgttctc tgaggccagt agtaacatca gagaccgttc ttccagactt
     2341 tactcctttt ttttttcaga cttgtttgta aaatgtagaa tttgaattta gcctttatga
     2401 ttgtatatga tccacagaag acctgattta tgaagttttc tactaaaaaa aagcaaaatc
     2461 gaaaacagtt gtattgtaaa ctaaggctaa ttttttttaa cctgtgtcct gtgttctgaa
     2521 ggccagctgg taacaaagtt gcatcagact ttctctgcag tgatttgcac tgttagggtt
     2581 ttgttagccc ttttatacta ctttattttt aaattgaaaa cattactctt taaatgtaag
     2641 tttgcttaga ccttgggata ttttcttgga ccagaggcaa cttatgtatg aattcctgga
     2701 tttctatgga aactttgtac caggacagat aagctgatgt gtaggcattt aatggactga
     2761 atatgacagt tgacatatgt acattctgct atttttaagt ctttcacttt ttatgttaaa
     2821 aaattacagc tgcttaggta cagcttctaa gtcgtccttt ctgagacatt tctgttctgt
     2881 ctccactgtg cctgcctaga tttgtcctca ccgagcactg cctgtgcatg cagagaaaat
     2941 ctgtgcatct tttatatttt taaaaactaa catttgtgag aattttatgg aaatgctttt
     3001 gtatgagctg tggcttttcc tcgttgtaaa gcgctggata gcacattctg gaacatgttc
     3061 ctgggtcctg ggtctttgct ccccagaccc aagcactgct tcttggtgtc attgcgtcca
     3121 gagtgccact atcatgtgta ttccttattc tcttaatgtt ttttaaaaaa atcattcctt
     3181 tttttaagaa gagtaatttt ctgtttatga agcagtataa attagacgca ttttcaaaac
     3241 agttacccta agacaattgt ttggatcatt tttaaagtga ctaaggaatt ttagtatgtc
     3301 aaccaagata aaagttatac tgtaccctat attttgccca tagtgccatt agtagattag
     3361 agattaaagt cacttttaac tttacaaagt taacttgtat atgttctgtt ctcggtcgtt
     3421 agttctctca aaatcaaatg aattcagagg gaacttgtct ggctgctttt gtttcaactg
     3481 caggcagtgg agcagaagga cgccgcgtgg cactaaagtg aactgttgcg tgttaacagt
     3541 tttatacaga gactgagcca ttttggatga ctcaaaattt tatgagaaga catttaattg
     3601 cttatgctgt ttttaagagg aaataaaatt acatactgtt taaataaatg aatttttttc
     3661 tttttaaaaa attctctaga aggtcttgat cttgaatctg tcttggacct tgttttttct
     3721 ttaaggtttt ttgttttgtt tgtttaatct taattgtaat gttgggtttg tttgttgtgg
     3781 gtttttactt tgtttaagtt gtgctggcac caaacgcacc cagtttgtaa tcagcaggtt
     3841 ggtgtagaac cagtacataa cttctaatgg ctttttgtcc tgtctttccc ccaccccctt
     3901 gtctctgtct ctgtctcttt cttgtaaagt gtgaatataa gatgtgttga ctcgattttc
     3961 gtaaacactg tgttggtagt gtgcatcatg acaatttcca gtgaaggtga actggagctg
     4021 gttggactga tgggactgag gaatccactt ttcctgtgac ctgcttagag aagcacaggt
     4081 ccagagagtg tggtgtgagg agtggggagg agcacttact catttttgca tttgttagtg
     4141 gaagacgtat tcctttcatg gatgctggaa ctagagtgca cttgttagat gctaaaggtt
     4201 tgagctttac agagaacatt catctgtatt tgtaactgtc tacactatat ttgaatctgg
     4261 gggcagcata gtgagatata attaattgcc tgttatgtct tgaaagtact tgttttgcct
     4321 cttttaggcg tactgcattc tgtgggtcag tttgaacatc cccacctggg ttagatagtg
     4381 gtgagttgaa cggagagtgt agatttacaa gtataatctt caaaagaaaa atattttgaa
     4441 tctattgaga ataaatgttc acaccaaaat agactgatac tttgttaagc aaggttttat
     4501 gttttaaatg ctttgtgtcc aaaataattt ccaagaacct atacttctta aaatgcataa
     4561 aactagtctg ttttcataat gtagattatt ttgaaagata cagatttttg aaaaattctg
     4621 taataaatat atgtaatgtt ttgctataat gtaatttcag tgttcttgat gataaataca
     4681 tcttaggagt gttttacaga atgtttggaa tatgtttccc tttctaaaga tgcagattgg
     4741 aggcactcaa atctttgtaa atcttatgaa gtacagttta cagtattggt ggtaattatt
     4801 tatgctttga gaatttaaat aatgttcgtt gaaattaatt tatggcatag tataaactga
     4861 agttctagaa gtaaattgtt gattgcagct ttaataatcc cagaacatag gcatctccaa
     4921 aaatttcgtt tttgtttgta ctttgatttg atttggtgtc aactaggaaa attcatttca
     4981 tattagcact ttgaaaccta aagacataat taaattgggt agaatgcact tctaaatctt
     5041 taaattataa ttgaaacctc taagattcca ttttcccata atagcactca tggtttagag
     5101 ttccactttt tcactattta aactgactct gaagtttggt ggtcatgtca tatgtaggcc
     5161 aaagccaacc caggcaagac aattagagga gtttgtcttc cgagagtcag ccataatatc
     5221 caggaccaca ggtgttgcag ataatttaga gaacataagc aggtgtctcc aaccacaagc
     5281 agtattttaa gatgttcgct ttgttccttt tggttacata aattttaaaa actggtatgt
     5341 tgatgtagtg tctaaagtag agtagtcttt attcacagta cattatatgg tgtaatgcac
     5401 tggactaact cttgtttacc attcgtgtaa caaaacccag cacactttct gcactaagct
     5461 caagaacgtc atatctgcct aggcagctct ttgataaggg tgatgagaaa ctgaatttac
     5521 accatgtgga ctggtggtaa caagggcttt tactgttctt ttcagtggga ttcttcttgg
     5581 tcaaattgta actagctagt attatattta tatacagggt ctcttttcct taccgatgta
     5641 ttttcctact catagccaac caataaattc aatatctgtt tcaaa
//
