LOCUS       NM_007770               2931 bp    mRNA    linear   ROD 06-NOV-2024
DEFINITION  Mus musculus cone-rod homeobox (Crx), transcript variant 1, mRNA.
ACCESSION   NM_007770
VERSION     NM_007770.4
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 2931)
  AUTHORS   Nord,C., Jones,I., Garcia-Maestre,M., Hagglund,A.C. and Carlsson,L.
  TITLE     Reduced mTORC1-signaling in progenitor cells leads to retinal
            lamination deficits
  JOURNAL   Dev Dyn 253 (10), 922-939 (2024)
   PUBMED   38546215
REFERENCE   2  (bases 1 to 2931)
  AUTHORS   Shepherdson,J.L., Friedman,R.Z., Zheng,Y., Sun,C., Oh,I.Y.,
            Granas,D.M., Cohen,B.A., Chen,S. and White,M.A.
  TITLE     Pathogenic variants in CRX have distinct cis-regulatory effects on
            enhancers and silencers in photoreceptors
  JOURNAL   Genome Res 34 (2), 243-255 (2024)
   PUBMED   38355306
  REMARK    GeneRIF: Pathogenic variants in CRX have distinct cis-regulatory
            effects on enhancers and silencers in photoreceptors.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2931)
  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   4  (bases 1 to 2931)
  AUTHORS   Li,Y., Xiao,D., Chen,H., Zheng,X.F.S. and Xiang,M.
  TITLE     Maf1 controls retinal neuron number by both RNA Pol III- and Pol
            II-dependent mechanisms
  JOURNAL   iScience 26 (12), 108544 (2023)
   PUBMED   38089586
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2931)
  AUTHORS   Zheng,Y., Sun,C., Zhang,X., Ruzycki,P.A. and Chen,S.
  TITLE     Missense mutations in CRX homeodomain cause dominant retinopathies
            through two distinct mechanisms
  JOURNAL   Elife 12, 87147 (2023)
   PUBMED   37963072
  REMARK    GeneRIF: Missense mutations in CRX homeodomain cause dominant
            retinopathies through two distinct mechanisms.
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2931)
  AUTHORS   Abitbol,M. and DuFier,J.L.
  TITLE     From CRX to CRD
  JOURNAL   Nat Med 4 (1), 18-19 (1998)
   PUBMED   9427598
REFERENCE   7  (bases 1 to 2931)
  AUTHORS   Freund,C.L., Gregory-Evans,C.Y., Furukawa,T., Papaioannou,M.,
            Looser,J., Ploder,L., Bellingham,J., Ng,D., Herbrick,J.A.,
            Duncan,A., Scherer,S.W., Tsui,L.C., Loutradis-Anagnostou,A.,
            Jacobson,S.G., Cepko,C.L., Bhattacharya,S.S. and McInnes,R.R.
  TITLE     Cone-rod dystrophy due to mutations in a novel
            photoreceptor-specific homeobox gene (CRX) essential for
            maintenance of the photoreceptor
  JOURNAL   Cell 91 (4), 543-553 (1997)
   PUBMED   9390563
REFERENCE   8  (bases 1 to 2931)
  AUTHORS   Furukawa,T., Morrow,E.M. and Cepko,C.L.
  TITLE     Crx, a novel otx-like homeobox gene, shows photoreceptor-specific
            expression and regulates photoreceptor differentiation
  JOURNAL   Cell 91 (4), 531-541 (1997)
   PUBMED   9390562
REFERENCE   9  (bases 1 to 2931)
  AUTHORS   Chen,S., Wang,Q.L., Nie,Z., Sun,H., Lennon,G., Copeland,N.G.,
            Gilbert,D.J., Jenkins,N.A. and Zack,D.J.
  TITLE     Crx, a novel Otx-like paired-homeodomain protein, binds to and
            transactivates photoreceptor cell-specific genes
  JOURNAL   Neuron 19 (5), 1017-1030 (1997)
   PUBMED   9390516
REFERENCE   10 (bases 1 to 2931)
  AUTHORS   Kanai,A., Kuzuhara,T., Sekimizu,K. and Natori,S.
  TITLE     Heterogeneity and tissue-specific expression of eukaryotic
            transcription factor S-II-related protein mRNA
  JOURNAL   J Biochem 109 (5), 674-677 (1991)
   PUBMED   1917889
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BG403985.1 and BC016502.1.
            
            On Jan 9, 2008 this sequence version replaced NM_007770.3.
            
            Transcript Variant: This variant (1) represents the more
            predominant transcript and encodes the shorter isoform (1).
            
            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 :: BC016502.1, AK053533.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849383, SAMN01164138
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-190               BG403985.1         14-203
            191-2931            BC016502.1         105-2845
FEATURES             Location/Qualifiers
     source          1..2931
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10090"
                     /chromosome="7"
                     /map="7 8.6 cM"
     gene            1..2931
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /note="cone-rod homeobox"
                     /db_xref="GeneID:12951"
                     /db_xref="MGI:MGI:1194883"
     exon            1..140
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /inference="alignment:Splign:2.1.0"
     exon            141..273
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /inference="alignment:Splign:2.1.0"
     CDS             174..1073
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /note="isoform 1 is encoded by transcript variant 1;
                     cone-rod homeobox protein; cone-rod homeobox containing"
                     /codon_start=1
                     /product="cone-rod homeobox protein isoform 1"
                     /protein_id="NP_031796.1"
                     /db_xref="CCDS:CCDS20840.1"
                     /db_xref="GeneID:12951"
                     /db_xref="MGI:MGI:1194883"
                     /translation="MMAYMNPGPHYSVNALALSGPNVDLMHQAVPYSSAPRKQRRERT
                     TFTRSQLEELEALFAKTQYPDVYAREEVALKINLPESRVQVWFKNRRAKCRQQRQQQK
                     QQQQPPGAQTKARPAKRKAGTSPRPSTDVCTDPLGISDSYSPSLPGPSGSPTTAVATV
                     SIWSPASEAPLPEAQRAGLVASGPSLTSAPYAMTYAPASAFCSSPSAYASPSSYFSGL
                     DPYLSPMVPQLGGPALSPLSGPSVGPSLAQSPTSLSGQSYSTYSPVDSLEFKDPTGTW
                     KFTYNPMDPLDYKDQSAWKFQIL"
     exon            274..425
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /inference="alignment:Splign:2.1.0"
     exon            426..2906
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1604..1609
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /note="hexamer: AATAAA"
     polyA_site      1627
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /note="major polyA site"
     regulatory      2884..2889
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /note="hexamer: ATTAAA"
     polyA_site      2906
                     /gene="Crx"
                     /gene_synonym="Crx1"
                     /note="major polyA site"
ORIGIN      
        1 gccacaatag atgacatcac tcccagccca ggcttaaagt cgccccgtgt gaggggacct
       61 atttcctcta gcctctgctg tctgatgaca ccatccagta cctgaacatc caggagagtc
      121 cccatttctc ctttccaaag gtgccctcat ctgggccaca gtctctgaag atcatgatgg
      181 catatatgaa cccggggcct cactattcag tcaatgcctt ggctctgagt ggccccaatg
      241 tggacctgat gcaccaggct gtcccatact caagtgcccc taggaagcag cggcgggagc
      301 ggaccacatt caccaggagc cagctggagg agctggaggc cctgtttgcc aagacccagt
      361 acccggatgt gtatgcacgt gaggaggttg ctcttaagat caatctgcct gagtccaggg
      421 tccaggtctg gttcaagaat cgtagggcga aatgcagaca gcagcgacag cagcagaaac
      481 agcaacagca gcccccgggg gcacagacca aggctcgtcc tgcgaagagg aaggcaggga
      541 catccccgag accctctaca gatgtttgta cagatccttt gggcatctca gattcttaca
      601 gcccatctct gcctggcccc tcaggttcac ctaccacagc agtggccacc gtgtccattt
      661 ggagtccagc ctcagaggct cctttgcctg aggcccagag agccggccta gtggcttctg
      721 ggccctctct cacctcagcc ccttatgcca tgacctatgc cccggcttct gctttctgtt
      781 cttccccttc agcttatgca tctccaagtt cctatttcag tgggttggat ccctaccttt
      841 cgcccatggt gccccaactt gggggtccgg ctctcagccc cctctcaggc ccctctgtgg
      901 ggccatccct ggcccagtcc cccacctcct tgtcaggcca gagctatagc acctacagtc
      961 ctgtggacag cctggaattc aaggacccca caggcacctg gaaatttacc tacaatccca
     1021 tggaccctct ggactacaaa gatcagagtg cctggaagtt tcagatcttg tagaaggggc
     1081 ttcatatccc cccttccagc ggaatcactc tttctggact caagctgtct cctccagctt
     1141 agattccagg agagtagctc tcagcaagca acagcaagta gcaatcctgc caaaggctgt
     1201 gaaccattca gcctcaggtg tttcctaccc tcagctcctt tagagagctt agccccttta
     1261 cagcataccc caagcaatga aagtggctcc ttcctctctc aagacagccc agcagcagtc
     1321 agtacaggtc atgactgatg tgcatatctg atgcttttcc ccagtcttcc gtaaaggtgc
     1381 tgagaacttg ctctggagaa aaaggaaatc tgtcttgcaa atgacttgga gaatgtttgg
     1441 cttagaactc cgggtgccct gagccaggtg tgttgactga ctcaatggtc ataatcccag
     1501 catgaaagaa gatgaggcag gaggattgct gggaacttga ggccagcctg gactacaaag
     1561 tgagacctcc aaattcattt ggaaaacgta tacagttaaa gttaataaac atcaggttta
     1621 catggtaggt ttaggggatc attcatttga acatgtatat atgatttaaa tgtatatatg
     1681 atttatgtgt ctgtctgtgt gttacagaca tgaccactaa actgagctgg gatgctgtgg
     1741 cttgtataaa aacaaaatgc aaaagaagct tgatgtggat attggggagg acttgaaaga
     1801 taaatagaat gttctagagc ccaagatgcc cccgtcagag gttcctaggg ttagattgag
     1861 ggggcacaag tgatgaagtc ttccagatgc ctataggagt tgaatctcaa gaggctggaa
     1921 gtcttattca tgggtatacc tgggtaaagg acttttagaa atccatagag tatgtctaat
     1981 gtcttagtta gtcttagtcc aatgcctttc tattcctgca caaacatcat gatcaagaag
     2041 cgagttgggg aggaaagggt ttatttagct tatacttttt acaatgttgg tcatcaccaa
     2101 aggaaggcag aactggaact caagcaggtc aggaagcagg agctgatgta gaggccatgg
     2161 agggatgtta cttactggct tgcttcctct gacttgctca gtttgcttat agaacccaag
     2221 actaccagcc cagggatggc accacccaca aggggccctc ccgtcttgat cactaattga
     2281 gaaaatgcct tatagccgga tctcatggag gcatttcctc aactgaagct cctttctctg
     2341 tgataactct agcttgtgtt atcaaaacca gccagtacac ccaatattct ttttaaaaaa
     2401 gattttatat gagtacacat tagctatctc cagacacacc aggaaagggc atggatctca
     2461 ttacagatag ttgtgagcca ccacatagtt actggaaatt gaacctagga cttctggaag
     2521 agcagtcaat gttcttaatt gctgagtcat ctctccagtc catggacata ttctatttca
     2581 taaaccagga gtgatggcac atgcttgtga tttcaacacg agggaggtag aggcagaagg
     2641 acaatgagtt caaggtcatt ctaggctaca atgcaagttt gaggccagcc tgggctacat
     2701 aaaaccctgt tgcactccca cccctgcaaa tccttctttc caagccacaa ggctgataag
     2761 gcagatggac atagaatgag gaggtcagga gttcccctca tttaatgtta gcttctctgt
     2821 tctcttcttt ccttcttact agcctatcag gtctcccttc cctggctacc cagagtgaaa
     2881 ctgattaaaa atgtggatcc cacttaaaaa aaaaaaaaaa aaaaaaaaaa a
//
