LOCUS       NM_001415781            4979 bp    mRNA    linear   ROD 01-APR-2024
DEFINITION  Rattus norvegicus cut-like homeobox 2 (Cux2), transcript variant 2,
            mRNA.
ACCESSION   NM_001415781 XM_039089250
VERSION     NM_001415781.1
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 4979)
  AUTHORS   Pal,R., Ramdzan,Z.M., Kaur,S., Duquette,P.M., Marcotte,R.,
            Leduy,L., Davoudi,S., Lamarche-Vane,N., Iulianella,A. and Nepveu,A.
  TITLE     CUX2 protein functions as an accessory factor in the repair of
            oxidative DNA damage
  JOURNAL   J Biol Chem 290 (37), 22520-22531 (2015)
   PUBMED   26221032
  REMARK    GeneRIF: results suggest that the persistent expression of CUX2 in
            postmitotic neurons contributes to the maintenance of genome
            integrity through its stimulation of oxidative DNA damage repair.
REFERENCE   2  (bases 1 to 4979)
  AUTHORS   Cubelos,B., Sebastian-Serrano,A., Beccari,L., Calcagnotto,M.E.,
            Cisneros,E., Kim,S., Dopazo,A., Alvarez-Dolado,M., Redondo,J.M.,
            Bovolenta,P., Walsh,C.A. and Nieto,M.
  TITLE     Cux1 and Cux2 regulate dendritic branching, spine morphology, and
            synapses of the upper layer neurons of the cortex
  JOURNAL   Neuron 66 (4), 523-535 (2010)
   PUBMED   20510857
REFERENCE   3  (bases 1 to 4979)
  AUTHORS   Gonzales,P.A., Pisitkun,T., Hoffert,J.D., Tchapyjnikov,D.,
            Star,R.A., Kleta,R., Wang,N.S. and Knepper,M.A.
  TITLE     Large-scale proteomics and phosphoproteomics of urinary exosomes
  JOURNAL   J Am Soc Nephrol 20 (2), 363-379 (2009)
   PUBMED   19056867
REFERENCE   4  (bases 1 to 4979)
  AUTHORS   Arnold,S.J., Huang,G.J., Cheung,A.F., Era,T., Nishikawa,S.,
            Bikoff,E.K., Molnar,Z., Robertson,E.J. and Groszer,M.
  TITLE     The T-box transcription factor Eomes/Tbr2 regulates neurogenesis in
            the cortical subventricular zone
  JOURNAL   Genes Dev 22 (18), 2479-2484 (2008)
   PUBMED   18794345
REFERENCE   5  (bases 1 to 4979)
  AUTHORS   Laz,E.V., Holloway,M.G., Chen,C.S. and Waxman,D.J.
  TITLE     Characterization of three growth hormone-responsive transcription
            factors preferentially expressed in adult female liver
  JOURNAL   Endocrinology 148 (7), 3327-3337 (2007)
   PUBMED   17412818
REFERENCE   6  (bases 1 to 4979)
  AUTHORS   Glaser,B., Kirov,G., Green,E., Craddock,N. and Owen,M.J.
  TITLE     Linkage disequilibrium mapping of bipolar affective disorder at
            12q23-q24 provides evidence for association at CUX2 and FLJ32356
  JOURNAL   Am J Med Genet B Neuropsychiatr Genet 132B (1), 38-45 (2005)
   PUBMED   15389760
REFERENCE   7  (bases 1 to 4979)
  AUTHORS   Gingras,H., Cases,O., Krasilnikova,M., Berube,G. and Nepveu,A.
  TITLE     Biochemical characterization of the mammalian Cux2 protein
  JOURNAL   Gene 344, 273-285 (2005)
   PUBMED   15656993
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000012.1.
            
            On Dec 29, 2022 this sequence version replaced XM_039089250.1.
            
            ##Evidence-Data-START##
            RNAseq introns :: single sample supports all introns SAMEA5760393,
                              SAMEA5760433 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-207               JAXUCZ010000012.1  40179282-40179488
            208-318             JAXUCZ010000012.1  40302481-40302591
            319-366             JAXUCZ010000012.1  40306142-40306189
            367-445             JAXUCZ010000012.1  40327175-40327253
            446-580             JAXUCZ010000012.1  40338307-40338441
            581-701             JAXUCZ010000012.1  40340236-40340356
            702-778             JAXUCZ010000012.1  40341604-40341680
            779-845             JAXUCZ010000012.1  40342376-40342442
            846-894             JAXUCZ010000012.1  40343668-40343716
            895-999             JAXUCZ010000012.1  40346775-40346879
            1000-1191           JAXUCZ010000012.1  40349088-40349279
            1192-1250           JAXUCZ010000012.1  40349359-40349417
            1251-1299           JAXUCZ010000012.1  40351032-40351080
            1300-1399           JAXUCZ010000012.1  40351175-40351274
            1400-2044           JAXUCZ010000012.1  40352054-40352698
            2045-2146           JAXUCZ010000012.1  40353476-40353577
            2147-2925           JAXUCZ010000012.1  40356596-40357374
            2926-3091           JAXUCZ010000012.1  40357916-40358081
            3092-3361           JAXUCZ010000012.1  40359340-40359609
            3362-3550           JAXUCZ010000012.1  40360867-40361055
            3551-3824           JAXUCZ010000012.1  40362295-40362568
            3825-4979           JAXUCZ010000012.1  40365374-40366528
FEATURES             Location/Qualifiers
     source          1..4979
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="12"
                     /map="12q16"
     gene            1..4979
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /note="cut-like homeobox 2"
                     /db_xref="GeneID:288665"
                     /db_xref="RGD:1305967"
     exon            1..207
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     CDS             97..4611
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /note="isoform 2 is encoded by transcript variant 2;
                     cut-like 2; homeobox protein cut-like 2"
                     /codon_start=1
                     /product="homeobox protein cut-like 2 isoform 2"
                     /protein_id="NP_001402710.1"
                     /db_xref="GeneID:288665"
                     /db_xref="RGD:1305967"
                     /translation="MAAEGGPRGARGPRPARAARATRGPRARRRLDLRRLQKELNSVA
                     SELSVPQEESEHSPKRLIELRREFKKNVPEGIRAMVAPVLKSFQAEVVALSKRSQEAE
                     AAFLSVYKQLIEAPDPVPSVEVARTLDDRLQRPSFHPSGQRLRDVHISWKRCPEPPSA
                     REQNEGTCPTGHTPANGNHLPGPEDTLVTDTLLQKDEAERQKGLQEVHVTLAARLGEA
                     EEKIKVLHSALKATQTELLELRRKYDEEAASKADEVGLIMTNLEKANQRAEAAQREVE
                     SLREQLASVNSSIRLACCSPQGPGGEKVSFALCSGPRLEAALASKDREILRLLKDAQQ
                     LRHSLQELEEVSANQIADLERQLAAKSEAIEKLQEKLEAQADYEEIKTELSILRAMKL
                     ASSTCSLPQALGKPDDPLLMAKDAFFPTQKLLLEKPALLASPEEDPSEDDSIKGSLGM
                     EPSYPPQLPPPPGPEDPLSPSPTQPLLGPSLGPDGPRTFSLSPFPSLAPGERLAGDPL
                     LSKHMMAPVAFKGETGNLLAFPPAFYGGAKPPTAPAAPVPGPEPSGAPEPVDGAGPEE
                     EQLDTAEIAFQVKEQLLKHNIGQRVFGHYVLGLSQGSVSEILARPKPWRKLTVKGKEP
                     FIKMKQFLSDEQNVLALRTIQVRQRGSITPRIRTPETGSDDAIKSILEQAKKEIESQK
                     GGESKNSPASVSIPNGTASSSTSEDAIKNILEQARREMQAQQQALLEMESGPRGRSVP
                     PSPPERPSPATMSQNGALACVKQEDGGCSSSSSGSAQAPLAVLSPAAFVQRIIRKVKS
                     EIGDAGYFDHHWASDRGLLSRPYASVSPSLSSSSSYSGQPNGRAWPRGDEATIAPEDE
                     AATGMGEDEAPRVGELKAEAGVSEVGGGRLPYYPAYVPRTLKPTVPPLTPEQYELYMY
                     REVDTLELTRQVKEKLAKNGICQRIFGEKVLGLSQGSVSDMLSRPKPWSKLTQKGREP
                     FIRMQLWLSDQLGQGQAPNQQPSASQASPTEPTSSPSPPPSPTEPEKTSQEPLGLSLE
                     SSKENQQPEGRASSTLGGKPLSSSQTTGGIQEMVAMSPELDTYSITKRVKEVLTDNNL
                     GQRLFGESILGLTQGSVSDLLSRPKPWHKLSLKGREPFVRMRLWLSDPHNVEKLRDVK
                     KLEKKAYLKRRYGLISTGSDSESPAAHSECPSPCLQPQELSLMQAKKPRVVLAPAEKE
                     ALRKAYQLEPYPSQQTIELLSFQLNLKTNTVVNWFHNYRSRMRREMLVEGTQDDPDFD
                     PSGGSSVLPSGHTHTDPTPQSPDSEIEDQKPPMKSLELQEPESPVHQAAPDRAVVKIK
                     QEEGLEVDGDSQPQDIGDPDRGQGGPKEEDTHPLGNNELSELVPGPFLPGTPNPDCSS
                     LHTPQAKETGEQVHSEPLSFKSTSESSCCSLEGPPNSPSAISSPDLMTCVSPAPSSSA
                     PISPSLPGTLPAKVPSTSPTADPAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAA
                     NREEALEWEF"
     exon            208..318
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            319..366
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            367..445
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            446..580
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            581..701
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            702..778
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            779..845
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            846..894
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            895..999
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1000..1191
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1192..1250
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1251..1299
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1300..1399
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            1400..2044
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            2045..2146
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            2147..2925
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            2926..3091
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            3092..3361
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            3362..3550
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            3551..3824
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
     exon            3825..4979
                     /gene="Cux2"
                     /gene_synonym="Cutl2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aagtcaagtg cgtgcgcgca gagccgggcc gcgctcccgg ggtccagccc gggtgttggc
       61 ggcagccgca tccccggccg cgcgcccgcc cccaagatgg cggccgaggg gggaccgcgg
      121 ggggcccggg gaccgaggcc ggccagggct gcacgggcga ccagggggcc gcgcgcaaga
      181 cggcgcctgg acttacggcg gctgcagaag gagcttaatt ctgtcgcctc agagctgtct
      241 gtgccacagg aggaaagcga gcattctcct aaacgtttaa ttgaactccg ccgggaattt
      301 aagaaaaatg tgccagaggg aatcagagcg atggtagccc cagtgctgaa aagcttccaa
      361 gctgaggtgg tggctctcag taagagaagt caggaggcag aggcagcatt cctgagtgtt
      421 tataagcaat taattgaagc gccagaccct gtcccgtcgg ttgaggtggc gcggactcta
      481 gacgacagac tgcagcgtcc cagcttccac cccagtgggc agcgcctacg agacgtgcac
      541 atctcgtgga agaggtgccc agagccaccc agtgccagag agcagaacga ggggacgtgt
      601 cccaccgggc acacgccagc caacggtaac cacctgccag gtcccgagga caccctcgtg
      661 acagacacct tgctgcagaa ggatgaggcc gagagacaga agggcctcca agaagtccac
      721 gtcaccttgg cagccaggct gggggaggca gaggagaaaa tcaaggtgtt acattcagcg
      781 ctaaaggcca cacagacgga gctgctggag ctgaggagga aatacgatga ggaggctgca
      841 tccaaggccg atgaggtcgg cttgatcatg acgaacctgg agaaggccaa ccagcgagca
      901 gaggctgccc agcgggaggt agaaagcctc cgggagcagc tggcatcggt caacagctcc
      961 attcgcctgg cttgctgctc cccgcaggga cccggtgggg agaaggtgag cttcgccctg
     1021 tgctcagggc cccggctgga ggcagcgctg gcttccaagg acagggagat cctcaggctg
     1081 ctgaaggacg cccagcagct gcggcactct ctgcaggagc tggaagaggt ctcagccaac
     1141 caaatcgctg atctggagcg gcagctagcg gccaagtctg aggccataga gaaactccaa
     1201 gaaaagctgg aggcccaggc tgactatgaa gagattaaaa cagagctgag catcctgaga
     1261 gccatgaagc tggcctccag cacgtgcagc ctcccacagg cgctgggcaa gcctgacgac
     1321 ccactgctca tggccaagga tgccttcttc cccacacaga agctcctgct ggaaaagccc
     1381 gcgctgctgg ccagccctga ggaggacccc tcggaggatg actctatcaa gggctcactg
     1441 ggcatggagc cctcctaccc tcctcagctt ccacctccgc caggccctga agacccgctg
     1501 tccccaagcc ctacgcagcc cctgctgggc cccagcctgg gtcctgatgg accaaggact
     1561 ttctcgctgt cccccttccc cagcctggca ccgggggaga ggctggctgg ggacccactg
     1621 ctgtccaaac atatgatggc cccagttgcc ttcaaagggg aaacgggcaa cctgctggca
     1681 ttcccaccgg ccttctatgg cggtgccaag cctccaacgg ctcctgccgc cccagtgccc
     1741 ggccctgagc cctctggggc cccagagcct gtggacgggg ctgggccaga ggaggagcag
     1801 ctggacacgg ccgagatcgc cttccaggtg aaggagcagc ttctgaagca caacattggc
     1861 cagcgtgtgt ttggccacta tgtgctggga ctgtcgcagg gctcggtgag tgagatcctg
     1921 gcacggccca agccgtggcg caagctcacg gtgaagggca aggagccctt catcaagatg
     1981 aagcagttcc tgtcggatga gcagaacgtg ctggccctgc gcaccatcca ggtgaggcag
     2041 cgaggcagca tcaccccgag aatccgaact cctgagaccg gctcagacga cgccatcaag
     2101 agtatcctgg agcaggccaa gaaggagatt gagtctcaga aagggggtga gtccaagaac
     2161 tcccctgcct ccgtgagcat ccccaacggc acagcttcct ccagcacctc ggaagacgcc
     2221 atcaagaaca ttctggaaca agcccgccgc gaaatgcaag cccagcagca ggccctgctg
     2281 gagatggagt cgggtcccag gggccgctca gtgcctccct ctcctccgga gcggccctcg
     2341 ccagccacta tgagccagaa tggggccctg gcctgcgtga agcaggaaga cggcggctgc
     2401 agcagcagca gtagcggcag tgcgcaggcg ccgcttgctg tcctgtcccc cgctgcattt
     2461 gtgcagcgga tcatccgcaa ggtgaagtca gagatcggcg acgctggcta ctttgatcac
     2521 cactgggcat cagaccgtgg tctgctcagc cgtccctacg cctccgtgtc accttccctc
     2581 tcctcctcct ccagctactc gggacagccc aatgggcgag cctggccccg tggggacgag
     2641 gcaaccattg cccctgagga cgaagcggct acgggcatgg gggaggacga ggcccccagg
     2701 gtgggagagc tcaaggccga ggccggagtc tccgaggtgg gtggcgggcg actgccctac
     2761 tacccagcgt atgtgccccg cacactcaag cccactgtgc cgcccctaac acccgagcaa
     2821 tacgagctat acatgtaccg ggaggtagac actctggagc tcacccgcca ggtcaaggag
     2881 aagctagcca agaacggcat ctgccagcgc atctttgggg agaaggtcct gggactgtct
     2941 cagggcagcg tgagtgacat gctgtcacgg ccaaagccat ggagcaagct gacacagaag
     3001 ggccgggagc ctttcatccg catgcagttg tggctatcag accagctggg ccagggccag
     3061 gccccaaacc agcagcccag cgctagccag gccagcccca cggagccaac gtcctcacca
     3121 tcacctcccc caagccccac ggagcctgaa aagacttccc aggagcctct gggcctgtcc
     3181 ctagaaagca gcaaggagaa tcagcaacca gagggccggg ccagctccac cctgggtggg
     3241 aagcccctct caagcagcca gactacgggg ggcatccagg agatggtggc catgtcccca
     3301 gagctggaca catactccat caccaagaga gtcaaggagg tcctcacgga caacaaccta
     3361 gggcagcggt tgtttggtga gagcatcctg gggctaacac agggctccgt gtcagacctg
     3421 ctgtcgaggc ccaagccctg gcacaagctg agcttgaagg gccgggagcc ctttgtgcgc
     3481 atgcggctgt ggctgagcga cccccacaat gtggaaaagc ttcgagatgt gaagaagctg
     3541 gagaagaaag cctatctgaa acgccgatac gggctcatca gcacgggctc tgacagcgag
     3601 tcaccggcag ctcactccga gtgtcccagc ccatgtctgc agccgcagga gttgagcctc
     3661 atgcaggcca agaagccacg tgtggtgctg gcaccggccg agaaggaggc tctgcggaag
     3721 gcctaccagc tagagcccta cccctcacag cagaccatag agttgctctc tttccagctc
     3781 aacctcaaga caaacactgt cgtcaactgg ttccacaact acaggtccag gatgcgccgg
     3841 gagatgctgg tggagggaac acaggatgac ccagactttg acccaagtgg gggctccagt
     3901 gtcctgccat caggccacac ccacacagac cccaccccgc agagccctga ctcagagatt
     3961 gaggaccaaa agccccccat gaagagcctg gagctgcagg aacctgagag tcccgtacac
     4021 caagcagccc cagacagggc tgtggtgaag attaagcagg aagagggttt agaggtggat
     4081 ggggacagcc agccccagga cataggggat ccagacagag ggcaaggtgg ccccaaagag
     4141 gaggatactc accctctggg gaacaatgaa ctctcagagc tggtccccgg gcctttcctt
     4201 ccaggcacac ccaatccaga ctgctcttca ttgcacaccc cccaagcaaa agagactggg
     4261 gaacaggttc actcagagcc tctgagtttc aagtccacct ctgaatcctc atgctgcagc
     4321 ctggaggggc caccgaactc tccctctgcc atctcctcgc cagacctcat gacatgtgtg
     4381 tcacccgccc cttcctcctc agcccccatc tccccatccc tacctggcac cctacctgcc
     4441 aaagtgccga gtaccagtcc cactgctgac ccagctgcag ccttgcaccc cagcactaag
     4501 gtgaacccca acttgcagcg gcggcatgag aaaatggcca acttgaacag tataatctac
     4561 cgactggaga gggctgccaa ccgggaagag gctctggagt gggaattctg aagctggggc
     4621 aagggacata ccccagaggt caccttccct ccctccctcc tgccctctcc cagatgcggt
     4681 ggggccagag aggcaagaac tcagccatgc agatgtggac aacaatgtta agccgtttac
     4741 gtttattgtt gtatcactag ttacctgagg ttgtgtgtga gcagatgcta ccgcctcttc
     4801 tttttgatag ccctgcttgt aggaggcact ggaatcctgc cctcatcctc tcccctgcgg
     4861 gaaggcagga gcaaaaaggt accacattct cactcaaaaa ctccaaactc ttttagaaaa
     4921 ataaagaaat atttatagac ctctttcagc tattttaata aaggatcctt tggaaattt
//
