LOCUS       NM_001415780            4992 bp    mRNA    linear   ROD 18-FEB-2024
DEFINITION  Mus musculus cut-like homeobox 2 (Cux2), transcript variant 3,
            mRNA.
ACCESSION   NM_001415780 XM_006530157
VERSION     NM_001415780.1
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 4992)
  AUTHORS   Cheffer,A., Garcia-Miralles,M., Maier,E., Akol,I., Franz,H.,
            Srinivasan,V.S.V. and Vogel,T.
  TITLE     DOT1L deletion impairs the development of cortical
            parvalbumin-expressing interneurons
  JOURNAL   Cereb Cortex 33 (19), 10272-10285 (2023)
   PUBMED   37566909
REFERENCE   2  (bases 1 to 4992)
  AUTHORS   Bounds,H.A., Sadahiro,M., Hendricks,W.D., Gajowa,M., Gopakumar,K.,
            Quintana,D., Tasic,B., Daigle,T.L., Zeng,H., Oldenburg,I.A. and
            Adesnik,H.
  TITLE     All-optical recreation of naturalistic neural activity with a
            multifunctional transgenic reporter mouse
  JOURNAL   Cell Rep 42 (8), 112909 (2023)
   PUBMED   37542722
REFERENCE   3  (bases 1 to 4992)
  AUTHORS   Wang,Q., Wang,Y., Kuo,H.C., Xie,P., Kuang,X., Hirokawa,K.E.,
            Naeemi,M., Yao,S., Mallory,M., Ouellette,B., Lesnar,P., Li,Y.,
            Ye,M., Chen,C., Xiong,W., Ahmadinia,L., El-Hifnawi,L., Cetin,A.,
            Sorensen,S.A., Harris,J.A., Zeng,H. and Koch,C.
  TITLE     Regional and cell-type-specific afferent and efferent projections
            of the mouse claustrum
  JOURNAL   Cell Rep 42 (2), 112118 (2023)
   PUBMED   36774552
REFERENCE   4  (bases 1 to 4992)
  AUTHORS   Blommers,M., Stanton-Turcotte,D. and Iulianella,A.
  TITLE     Retinal neuroblast migration and ganglion cell layer organization
            require the cytoskeletal-interacting protein Mllt11
  JOURNAL   Dev Dyn 252 (2), 305-319 (2023)
   PUBMED   36131367
REFERENCE   5  (bases 1 to 4992)
  AUTHORS   Yuan,W., Ma,S., Brown,J.R., Kim,K., Murek,V., Trastulla,L.,
            Meissner,A., Lodato,S., Shetty,A.S., Levin,J.Z., Buenrostro,J.D.,
            Ziller,M.J. and Arlotta,P.
  TITLE     Temporally divergent regulatory mechanisms govern neuronal
            diversification and maturation in the mouse and marmoset neocortex
  JOURNAL   Nat Neurosci 25 (8), 1049-1058 (2022)
   PUBMED   35915179
REFERENCE   6  (bases 1 to 4992)
  AUTHORS   Iulianella,A., Vanden Heuvel,G. and Trainor,P.
  TITLE     Dynamic expression of murine Cux2 in craniofacial, limb, urogenital
            and neuronal primordia
  JOURNAL   Gene Expr Patterns 3 (5), 571-577 (2003)
   PUBMED   12971989
REFERENCE   7  (bases 1 to 4992)
  AUTHORS   Vanden Heuvel,G.B., Quaggin,S.E. and Igarashi,P.
  TITLE     A unique variant of a homeobox gene related to Drosophila cut is
            expressed in mouse testis
  JOURNAL   Biol Reprod 55 (4), 731-739 (1996)
   PUBMED   8879483
REFERENCE   8  (bases 1 to 4992)
  AUTHORS   Quaggin,S.E., Heuvel,G.B., Golden,K., Bodmer,R. and Igarashi,P.
  TITLE     Primary structure, neural-specific expression, and chromosomal
            localization of Cux-2, a second murine homeobox gene related to
            Drosophila cut
  JOURNAL   J Biol Chem 271 (37), 22624-22634 (1996)
   PUBMED   8798433
REFERENCE   9  (bases 1 to 4992)
  AUTHORS   Vanden Heuvel,G.B., Bodmer,R., McConnell,K.R., Nagami,G.T. and
            Igarashi,P.
  TITLE     Expression of a cut-related homeobox gene in developing and
            polycystic mouse kidney
  JOURNAL   Kidney Int 50 (2), 453-461 (1996)
   PUBMED   8840273
REFERENCE   10 (bases 1 to 4992)
  AUTHORS   Valarche,I., Tissier-Seta,J.P., Hirsch,M.R., Martinez,S.,
            Goridis,C. and Brunet,J.F.
  TITLE     The mouse homeodomain protein Phox2 regulates Ncam promoter
            activity in concert with Cux/CDP and is a putative determinant of
            neurotransmitter phenotype
  JOURNAL   Development 119 (3), 881-896 (1993)
   PUBMED   7910552
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AC140353.2 and AC113302.13.
            
            [WARNING] On Mar 14, 2024 this sequence was replaced by
            NM_001415780.2.
            
            On Dec 29, 2022 this sequence version replaced XM_006530157.5.
            
            Summary: This gene is a member of the Cut family of transcription
            factors that have multiple DNA binding domains and regulate cell
            proliferation and differentiation. This gene is primarily expressed
            in nervous tissues where it controls the proliferation of neuronal
            precursors, and may play a role in organogenesis earlier during
            embryonic development. Mice lacking the encoded protein exhibit
            smaller spinal cords with deficits in neural progenitor development
            as well as in neuroblast and interneuron differentiation.
            Alternative splicing results in multiple transcript variants.
            [provided by RefSeq, Aug 2015].
            
            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 :: SRR7652917.599963.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMN00849374,
                                           SAMN00849375 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-209               AC140353.2         69334-69542         c
            210-320             AC113302.13        23505-23615
            321-368             AC113302.13        27059-27106
            369-447             AC113302.13        50065-50143
            448-582             AC113302.13        60932-61066
            583-703             AC113302.13        62462-62582
            704-780             AC113302.13        63597-63673
            781-847             AC113302.13        64347-64413
            848-896             AC113302.13        65599-65647
            897-1001            AC113302.13        68501-68605
            1002-1193           AC113302.13        71261-71452
            1194-1252           AC113302.13        71532-71590
            1253-1301           AC113302.13        73085-73133
            1302-1401           AC113302.13        73242-73341
            1402-2046           AC113302.13        74119-74763
            2047-2148           AC113302.13        75269-75370
            2149-2921           AC113302.13        78640-79412
            2922-3093           AC113302.13        79804-79975
            3094-3363           AC113302.13        81060-81329
            3364-3552           AC113302.13        82380-82568
            3553-3826           AC113302.13        83500-83773
            3827-4992           AC113302.13        87039-88204
FEATURES             Location/Qualifiers
     source          1..4992
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="5"
                     /map="5 62.02 cM"
     gene            1..4992
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /note="cut-like homeobox 2"
                     /db_xref="GeneID:13048"
                     /db_xref="MGI:MGI:107321"
     exon            1..209
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            210..320
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            321..368
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            369..447
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            448..582
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            583..703
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            704..780
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            781..847
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            848..896
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            897..1001
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1002..1193
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1194..1252
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1253..1301
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1302..1401
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            1402..2046
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2047..2148
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2149..2921
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            2922..3093
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3094..3363
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3364..3552
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3553..3826
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
     exon            3827..4992
                     /gene="Cux2"
                     /gene_synonym="1700051K22Rik; Cutl2; Cux-2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 aagtgcgagc ggcgtgcgcg cagagccggg ccgcgctccc ggggtccagc ccgggtgttg
       61 gcggcagccg catccccggc cgcgcgcccg cccccaagat ggcggccgag gggggaccgc
      121 ggggggcccg ggggccgagg ccggccaggg ctgtacgggc gaccaggggg ccgcgcgcaa
      181 gacggcgcct ggactggcgg cggctgcaga aggagcttag ttctgtcgcc tcggagctgt
      241 ctgcgccaca ggaggaaagc ggactttctc ctaaacattt cattgaactc cgccgggaat
      301 ttaagaaaga tgtgccagag ggaatcagag cgatggtagc tccggtgctg aagagcttcc
      361 aggctgaggt ggtggctctc agtaaaagaa gtcgggaggc agaggcggcg ttcctgagtg
      421 tttataagca attgattgaa gcaccagacc ctgtcccatc atttgaggtg gcgcggactc
      481 tagacgacag actgcagcgt cccagctttg accccagtgg gcagcgccta caagacgtgc
      541 acatcgcgtg gaagaggtgc ccagagccac ccagtgccag agagcagaac gaggggacgt
      601 gtcccacggg gcacacgcca gccaacggta accacctgcc aggtcccgag gacaccctcg
      661 tgacagacac cttgctgcag aagaatgagg ccgagagaca gaagggtctc caagaagtcc
      721 acatcacctt ggcagccagg ctgggggagg cagaggagaa aatcaaggtg ttacattcag
      781 cgctaaaggc cacacagaca gagctgctgg agctgaggag gaaatacgat gaggaggctg
      841 cttccaaggc cgatgaggtc ggcttgatca tgacgaacct ggagaaggcc aaccagcgag
      901 cagaggctgc ccagcgtgag gtggaaagcc ttcgggagca gctggcgtca gtcaacagct
      961 ccattcgcct ggcttgctgt tccccccagg gacccagtgg ggagaaggtg agctttgctc
     1021 tgtgttcagg gccgcggctg gaggcagctc tggcctccaa ggacagagag atcctgaggc
     1081 tgttgaagga cgcccagcag cttcgacatt ccctgcagga gctggaggag gtctcagcca
     1141 accaaatcgc tgacctggag cggcagctag ctgccaagtc cgaggccata gagaaactcc
     1201 aagaaaagct cgaggcccag gctgactatg aagagattaa aacagagctg agcatcctga
     1261 gagccatgaa gctggcctcc agcacctgca gcctcccaca gacgctggcc aagcctgacg
     1321 acccgctgct tgtggccaag gatgtcttct tccccacaca gaagttccta ctggagaagc
     1381 ctgcgctgct ggccagccct gaggaagacc cctcggagga tgactccatc aagggctcac
     1441 tgggcacgga gcccccctac cctcctcagc ttccacctcc gccaggcccg gaagacccgc
     1501 tgtccccaag ccctgcgcag cccctgctgg gccccagcct gggtcctgat gggccaagga
     1561 ctttctcgct gtcccccttc cccagcctgg ccccggggga gaggctggct ggggactcac
     1621 tgctatccaa acatatgatg ggcccagctg ccttcaaagg ggagacggga aacctgctgg
     1681 cattcccccc gactttctac ggtggtgcca agcctccatc agctcctgct gcctccgtgc
     1741 cctgccccga gcccacaggg gccccggagg ctgtggatgg ggctgggcca gaggaggagc
     1801 agctggacac ggctgagatc gcctttcagg tgaaggagca acttctcaag cacaacattg
     1861 gccagcgcgt gtttggccac tatgtgctgg gactgtcgca gggctcggtg agtgagatcc
     1921 tggcccggcc caagccgtgg cgtaagctca cggtgaaagg caaggagccc ttcatcaaga
     1981 tgaagcagtt cctgtcggat gagcagaatg tgctggccct gcgcaccatc caggtgaggc
     2041 agcgaggcag catcaccccg agaatccgca cacctgagac aggctcggac gacgccatca
     2101 agagcatcct ggagcaggcc aagaaggaga tagagtctca gaaggggggt gagtccaaga
     2161 actccccagc ctccgtgagc atccccaacg gcacagcctc ctccagcacc tcggaagatg
     2221 ccatcaagaa cattctggaa caagcccgcc gagaaatgca agcccagcag caggccctgc
     2281 tggagatgga gtcgggtccc aggggccgct cagtgcctcc ctctcctccg gagcggccct
     2341 cgccagccac tgcgagccag aatggggccc tgacctgcgt gaagcaggaa gatggcggtg
     2401 gtggcagcgg cagcagcagc actgtgcagg cgccgcttgc tgtcttgtcc cccgctgcat
     2461 ttgtgcagcg gatcatccgc aaggtgaagt cggagatcgg cgatgccggc tactttgacc
     2521 accactgggc atcagaccgt ggtttgctca gccgtcccta tgcctccgtg tcgccctccc
     2581 tctcctcctc ctccagctac tccggacagc ccaatgggcg agcctggcct cgtggggacg
     2641 aggcaaccat cgcccctgag gacgaagcag ctatgggcga ggacgaggcc cccagggtgg
     2701 gagagctcaa ggccgaggcc ggagccccgg aggtgggcgg cgggcgactg ccctactatc
     2761 cagcatacgt gccccgcaca ctcaaaccca ctgtgccgcc cctgacaccc gagcagtatg
     2821 aactgtacat gtaccgggag gtagacacgc tggagttgac acgccaggtc aaggagaagc
     2881 tagccaagaa cggcatctgc cagcgcatct ttggggagaa ggtcctggga ctgtctcagg
     2941 gtagcgtgag tgacatgctg tcacggccaa agccatggag caagctgaca cagaagggcc
     3001 gggagccttt tatccggatg cagttgtggc tgtcggacca gctgggccag ggccagggcc
     3061 aagccccaac ccagcagccc agcgctagcc aagccagtcc cacggagcca acctcctccc
     3121 catcgcctcc cccaagcccc acggagcctg aaaagacgtc ccaggagcct ctgggcctgt
     3181 cgctggaaag cagcaaggag aatcagcagc ccgaaggccg ggccagctcc tccctgggtg
     3241 ggaagccctt ctcaagcagc caggctgcgg ggggcatcca ggagatggtg gccatgtccc
     3301 cagagctgga cacatactcc atcaccaaga gagtcaagga ggtcctcacc gacaacaacc
     3361 tagggcagcg gctgtttggt gagagcatct tggggttgac ccagggctcc gtgtcagatc
     3421 tgctgtcgag gcccaagccc tggcacaaac tgagcttgaa gggccgggag ccctttgtgc
     3481 gtatgcagct gtggctgagt gacccccaca acgtggagaa gcttcgggac atgaagaagc
     3541 tggagaagaa agcctatctg aagcgccgct atgggctcat cggcaccggc tcggacagcg
     3601 agtcaccggc tgcgcactcc gagtgcccca gcccgtgttt gcagccccag gagttgagtc
     3661 tcatgcaggc caagaagccc agggtggtgc tggcgcccgc cgagaaggag gctctgcgga
     3721 aggcctacca gctcgagccg tacccctcgc agcagaccat agagctgctc tccttccaac
     3781 tcaacctcaa gacgaacacc gtcatcaact ggttccacaa ctacaggtcc aggatgcgcc
     3841 gtgaaatgct ggtggagggg acacaggatg atcctgactt tgacccgagt gggggtccca
     3901 atgtcctgac gccaggccac acccacagag agcccacccc acagagcccc gactcagaga
     3961 ctgaggacca aaagcccccc atgaagagct tagagctgca agagcctgag ggtcccctac
     4021 agcgagctgc cccagacagg gctctggtga agatcaaaca ggaagagggt ttggaggtgg
     4081 atggagacag ccagccccag gatgtggggg atccagaccg agggcaagat ggccccaaag
     4141 aggagcatac ccaccctctg ggaaacagtg acctctcaga gctggcccca gggccctttc
     4201 tttcaggcac acccaatcca gactgtcctt cattgcacaa cccccaagaa aaggggactg
     4261 gggaacaggt tcactcagag cctctgagtt tcaagtccac ctccgaatcc tcctgctgca
     4321 gcctggaggg gccaccgaac tctccctctg tcatctcctc gccagacctc acgacatgtg
     4381 tgtcacctgc cccttcctcc tcagccccca tctccccatc cttacctggt gccccacctg
     4441 ccaaagtgcc gagtaccagc cccactggtg acacagccgc agccttgcac cccagcacta
     4501 aggtgaaccc caacttgcag cggcggcatg agaaaatggc caacttgaac agtataatct
     4561 accggctgga gagggctgcc aaccgggaag aggtcctgga gtgggaattc tgaagctggg
     4621 gttgagggac atagccccag aggtcacctt ccctctctcc ctccctccct ctcccagatg
     4681 tggtggggtc cagagaggca agaactcagc catgcagatg tggacaacaa agttaagccg
     4741 tttacgttta ttgttgtatc actagttacc tgaagttgtg tgtgagcaga tgccgccgcc
     4801 tcttctttct gatggccctg ctcgtaggag gcgctggaat cctgccctca tcctcgcccc
     4861 tgtgggaagg cagggccaaa aaggtaccac attctcactc aaaaaaaaac aaactccaaa
     4921 ctcttttaga aaaataaaga aatatttata gacctctttc agctatttta ataaaggatc
     4981 ctttggaatt ta
//
