LOCUS       NM_054068               3579 bp    mRNA    linear   ROD 01-JUN-2024
DEFINITION  Mus musculus visual system homeobox 1 (Vsx1), mRNA.
ACCESSION   NM_054068
VERSION     NM_054068.2
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 3579)
  AUTHORS   Debrulle,S., Baudouin,C., Hidalgo-Figueroa,M., Pelosi,B.,
            Francius,C., Rucchin,V., Ronellenfitch,K., Chow,R.L., Tissir,F.,
            Lee,S.K. and Clotman,F.
  TITLE     Vsx1 and Chx10 paralogs sequentially secure V2 interneuron identity
            during spinal cord development
  JOURNAL   Cell Mol Life Sci 77 (20), 4117-4131 (2020)
   PUBMED   31822965
  REMARK    GeneRIF: Vsx1 and Chx10 paralogs sequentially secure V2 interneuron
            identity during spinal cord development.
REFERENCE   2  (bases 1 to 3579)
  AUTHORS   Yamamoto,H., Kon,T., Omori,Y. and Furukawa,T.
  TITLE     Functional and Evolutionary Diversification of Otx2 and Crx in
            Vertebrate Retinal Photoreceptor and Bipolar Cell Development
  JOURNAL   Cell Rep 30 (3), 658-671 (2020)
   PUBMED   31968244
REFERENCE   3  (bases 1 to 3579)
  AUTHORS   Desiderio,S., Vermeiren,S., Van Campenhout,C., Kricha,S., Malki,E.,
            Richts,S., Fletcher,E.V., Vanwelden,T., Schmidt,B.Z.,
            Henningfeld,K.A., Pieler,T., Woods,C.G., Nagy,V., Verfaillie,C. and
            Bellefroid,E.J.
  TITLE     Prdm12 Directs Nociceptive Sensory Neuron Development by Regulating
            the Expression of the NGF Receptor TrkA
  JOURNAL   Cell Rep 26 (13), 3522-3536 (2019)
   PUBMED   30917309
REFERENCE   4  (bases 1 to 3579)
  AUTHORS   Litke,A.M., Samuelson,S., Delaney,K.R., Sauve,Y. and Chow,R.L.
  TITLE     Investigating the Pathogenicity of VSX1 Missense Mutations and
            Their Association With Corneal Disease
  JOURNAL   Invest Ophthalmol Vis Sci 59 (15), 5824-5835 (2018)
   PUBMED   30535423
  REMARK    GeneRIF: Our results indicate that although VSX1 sequence variants
            can alter transcriptional activity, in the context of a mouse
            genetic model, at least one of these changes does not lead to
            corneal abnormalities. While we cannot exclude a role for VSX1 as a
            risk factor for corneal disease, on its own, it does not appear to
            play a major causative role.
REFERENCE   5  (bases 1 to 3579)
  AUTHORS   Kowalchuk,A.M., Maurer,K.A., Shoja-Taheri,F. and Brown,N.L.
  TITLE     Requirements for Neurogenin2 during mouse postnatal retinal
            neurogenesis
  JOURNAL   Dev Biol 442 (2), 220-235 (2018)
   PUBMED   30048641
REFERENCE   6  (bases 1 to 3579)
  AUTHORS   Knauer,S.K., Carra,G. and Stauber,R.H.
  TITLE     Nuclear export is evolutionarily conserved in CVC paired-like
            homeobox proteins and influences protein stability, transcriptional
            activation, and extracellular secretion
  JOURNAL   Mol Cell Biol 25 (7), 2573-2582 (2005)
   PUBMED   15767664
REFERENCE   7  (bases 1 to 3579)
  AUTHORS   Ohtoshi,A., Wang,S.W., Maeda,H., Saszik,S.M., Frishman,L.J.,
            Klein,W.H. and Behringer,R.R.
  TITLE     Regulation of retinal cone bipolar cell differentiation and
            photopic vision by the CVC homeobox gene Vsx1
  JOURNAL   Curr Biol 14 (6), 530-536 (2004)
   PUBMED   15043821
  REMARK    GeneRIF: Vsx1 is required for cone bipolar cell differentiation and
            regulates photopic vision perception.
REFERENCE   8  (bases 1 to 3579)
  AUTHORS   Chow,R.L., Volgyi,B., Szilard,R.K., Ng,D., McKerlie,C.,
            Bloomfield,S.A., Birch,D.G. and McInnes,R.R.
  TITLE     Control of late off-center cone bipolar cell differentiation and
            visual signaling by the homeobox gene Vsx1
  JOURNAL   Proc Natl Acad Sci U S A 101 (6), 1754-1759 (2004)
   PUBMED   14745032
  REMARK    GeneRIF: role in late differentiation and function of OFF-CB cells
            and is associated with a heritable OFF visual pathway-specific
            retinal defect
REFERENCE   9  (bases 1 to 3579)
  AUTHORS   Chow,R.L., Snow,B., Novak,J., Looser,J., Freund,C., Vidgen,D.,
            Ploder,L. and McInnes,R.R.
  TITLE     Vsx1, a rapidly evolving paired-like homeobox gene expressed in
            cone bipolar cells
  JOURNAL   Mech Dev 109 (2), 315-322 (2001)
   PUBMED   11731243
REFERENCE   10 (bases 1 to 3579)
  AUTHORS   Ohtoshi,A., Justice,M.J. and Behringer,R.R.
  TITLE     Isolation and characterization of Vsx1, a novel mouse CVC
            paired-like homeobox gene expressed during embryogenesis and in the
            retina
  JOURNAL   Biochem Biophys Res Commun 286 (1), 133-140 (2001)
   PUBMED   11485319
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC057647.1.
            
            On Dec 20, 2003 this sequence version replaced NM_054068.1.
            
            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 :: BC057647.1, AK044393.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164131, SAMN01164132
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
FEATURES             Location/Qualifiers
     source          1..3579
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 74.74 cM"
     gene            1..3579
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="visual system homeobox 1"
                     /db_xref="GeneID:114889"
                     /db_xref="MGI:MGI:1890816"
     exon            1..622
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    157..159
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="upstream in-frame stop codon"
     CDS             178..1269
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="homeodomain protein RINX; transcription factor
                     VSX1; retinal inner nuclear layer homeobox protein; visual
                     system homeobox 1 homolog"
                     /codon_start=1
                     /product="visual system homeobox 1"
                     /protein_id="NP_473409.1"
                     /db_xref="CCDS:CCDS16860.1"
                     /db_xref="GeneID:114889"
                     /db_xref="MGI:MGI:1890816"
                     /translation="

MTGRDGLSDARSRSRALAPGCPPTGSRLRSFAINDLLGLEADLPTPAEPGLRSNSGDPAEAIGSGPGPGPGLCGSCPARGALPLGLGLLCGFGAQPPSAAAAARARCLLLADLRLLPSAGPEPAVAQGPVHPPPALGSQQRSESVSTSDGDSPSEEKNDPKMSLILGKRKKRRHRTVFTAHQLEELEKAFGEAHYPDVYAREMLAAKTELPEDRIQVWFQNRRAKWRKREKRWGGSSVMAEYGLYGAMVRHCIPLPDSVLNSADSLQGSCAPWLLGMHKKSTGMRKPESEDKLAGLWEFDHLKKGANKDEDGPERGPDETTQNPENSLEDVAIDLSSSSRQETKKMPPGSSTQLPQPPQVGAS"

     misc_feature    178..252
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="propagated from UniProtKB/Swiss-Prot (Q91V10.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    268..291
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="propagated from UniProtKB/Swiss-Prot (Q91V10.1);
                     Region: Octapeptide motif"
     misc_feature    301..375
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="propagated from UniProtKB/Swiss-Prot (Q91V10.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    541..675
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="propagated from UniProtKB/Swiss-Prot (Q91V10.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    679..696
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="propagated from UniProtKB/Swiss-Prot (Q91V10.1);
                     Region: Nuclear localization signal.
                     /evidence=ECO:0000255"
     misc_feature    691..861
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     misc_feature    1075..1266
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="propagated from UniProtKB/Swiss-Prot (Q91V10.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            623..701
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /inference="alignment:Splign:2.1.0"
     exon            702..825
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /inference="alignment:Splign:2.1.0"
     exon            826..1003
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /inference="alignment:Splign:2.1.0"
     exon            1004..3568
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1363..1368
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="hexamer: AATAAA"
     polyA_site      1384
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="major polyA site"
     regulatory      2250..2255
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="hexamer: AATAAA"
     polyA_site      2277
                     /gene="Vsx1"
                     /gene_synonym="CHX10-like"
                     /note="major polyA site"
ORIGIN      

tgaacctgctggtgggagcttggatgcgtctgctccctgctgattggcgccttctaggctgtctaggtctcagggacagcttctccagcataaaaggggtcgcctagagctagcctcttctgcacaggtggccagagaggactcaactccggctcctagcctagaggactgagaagcatgactggacgggatgggctttcggatgcgcgctccaggagtagagccctggcgccaggctgtcctcccaccggctctcgccttcgaagctttgccatcaatgacctgctgggattggaggcagacctgccaactccggcggagcctgggctaagatccaacagcggagatccagcggaggcaatagggtcgggaccgggaccggggccaggactctgcggctcctgccctgctcgcggggctctcccgctgggcctggggctcctctgcggcttcggggcgcagcccccttccgctgccgccgccgctcgtgcgcgctgcctgctcctcgccgacctgcggcttctgccatctgcaggacccgagcctgctgtcgcccagggcccggtccacccgccgcctgcgctcggcagccagcagcgcagcgagagcgtctccacgtcggatggggacagtccatctgaagaaaagaatgacccgaagatgtcccttatcctgggcaaaaggaagaagcggaggcacaggacggttttcactgcccatcaactcgaagaactggagaaggcctttggtgaggcccactaccctgacgtgtacgctcgggaaatgctggctgcgaaaacagagctcccggaagaccgaatacaggtctggttccagaaccggagggccaagtggcgtaagcgagagaagcgctggggtggcagcagtgtgatggctgagtacgggctctacggagccatggtgcgccactgcattccactgccggacagcgtgctcaactctgcagatagcctgcagggctcctgtgcaccctggcttctggggatgcataaaaagtccacagggatgagaaaaccagaaagtgaagacaagttggcaggactctgggagtttgaccatctcaaaaagggtgctaataaggatgaggatggacctgagagggggccagacgaaacaacccagaaccctgagaatagcttggaggatgtggccattgacctgtccagctcttccaggcaggagactaagaaaatgcccccagggtccagtactcagctgccccagcccccacaggtgggagcctcatgagactgacagattgcgtcccccaaagctggacaaacaccttcagtttgattttctctctgaaatgtctggataaaaagcaacactacaacactgaataaacaatgacgtagggaaagttccctttagttctagagtggggaacattcataccacctctcaagccagtcagtttggtctaaaatcttgtttttccttagtggaatctgaacatggaaggtttgaagttcaaagaaaattttagggatggggtatgacgtcgcttagttaatagtacacaagaaggcctggattcaatacccggcaccactcaaaccagatacagtagcacgcacctgcaatcccagcactcagggggcggagacaagagatcagatgttcaagagcatcccagagagagagagagagagagagagagagagagagattattactccctagcattatttaagatgtggttcagtcattaaagagggctggtctgacctcctcactctaagttagaatatttggtttggttttggttgaaatgggttcttgctgtgcagcccaggctcgcttcattttcatgatctcctgcctcagtctctctagtgctgggttacaagtgtgaatataattgttataccatctctaggcttcagaggagtgaatgaatgaatgaatgaatgactgctatattaccattccttgagctgggtctaggacatctctgtctttgtgataggtgataattttgtgttctcagtcacttgatgggccttgaatattcgaggtataaacaacaaagaaagccacaagcccctccttctctgaagtcacctggagccatgtttaagcaattgttaaatatctggagactgtctgaaggtcagacccaacttcttggtctttttgaatttatgtttgaaagcactttagtaacttggattcatgaatgttgtcttccctgtatttcttttgccatttatttgttatttaaaaataaatgtgtcgtgtgtctggctcaaagctacttcctggcccctcagtaggctctccccttatgccccgttttagtctggaaacatgccgagcaagctgtctttcagcccgcagaacttagcacagggtctgtgtcatgtactgtgtggcagtagccctggcttttggagttcagaggctgaagaagggttgtctgttttgggcagcttcctctgcagattatctcaggaacccatcaagttaggctgtccccaccttcaccctagtctctttagataagaaaacgggcagtctcttcctttagtctaggtttgtcctatgttagttccatagtgttacactctatatcaatgaagtattaaccctgtgagatgatggtgaaatgttgctaggtgagaagcccttagagggggaaagagataagaggaaataaagatgtttaaagtacactgaaaataaaataaataatattcgacaactggttcgaaataaacatgtgaacaatgggcaaaagtctctgaaacattctaaggaaaacagagataacaaaaatggtgtggggcatatgtaacagatgtgcagctgggtcttcacgtgggactcctaaagcaggagcaggggccgtctctgacctcattgccgtcctttggattccccctcccctaactgcacctcagctcactgcagctcagcgtgccaagcctggctgatatccatgtgaggtgtcccctcttctgagaagaaggggaaggggctgggggtggggaggggagaggaaagggaggaactggggggggggagagaagctctcgatcaggatgtaaagtaaattaataagtaatgggaaaatggtgtgagaaaagaggaaagctatatatttgtgtgtgtgtatatatatatatgtatatatatttttctttttttcccttgacttttgctatgttacccaaccagcgatccctctgccccaacctccacagtagctggaccacagttttgtgccactgtgatcccgcagctaaaactgtgttaaatatgtaagaaaagcactatagctcagtgtgctggtatttgggaggctgggccagaggacctcaagttccaggttagcctttgctacagagtgagatttttttttcctcccaagacaggacctcactatagagctccggttgtcttagaactcactgtgtaccaggctggcctctgcttggcctttgcttcttaagtgctgcgatcaaaggcctggccatgagatcttgttttttaaaaaaaaaaaaaaaacaaataaaataaaaatcactattcacaactaaaaaaaaaaaaaaa

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