LOCUS       NM_131333               1587 bp    mRNA    linear   VRT 19-APR-2025
DEFINITION  Danio rerio visual system homeobox 1 homolog, chx10-like (vsx1),
            mRNA.
ACCESSION   NM_131333
VERSION     NM_131333.1
KEYWORDS    RefSeq.
SOURCE      Danio rerio (zebrafish)
  ORGANISM  Danio rerio
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
            Cypriniformes; Danionidae; Danioninae; Danio.
REFERENCE   1  (bases 1 to 1587)
  AUTHORS   Emmerich,K., Walker,S.L., Wang,G., White,D.T., Ceisel,A., Wang,F.,
            Teng,Y., Chunawala,Z., Graziano,G., Nimmagadda,S., Saxena,M.T.,
            Qian,J. and Mumm,J.S.
  TITLE     Transcriptomic comparison of two selective retinal cell ablation
            paradigms in zebrafish reveals shared and cell-specific
            regenerative responses
  JOURNAL   PLoS Genet 19 (10), e1010905 (2023)
   PUBMED   37819938
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1587)
  AUTHORS   Letelier,J., Buono,L., Almuedo-Castillo,M., Zang,J., Mounieres,C.,
            Gonzalez-Diaz,S., Polvillo,R., Sanabria-Reinoso,E., Corbacho,J.,
            Sousa-Ortega,A., Diez Del Corral,R., Neuhauss,S.C.F. and
            Martinez-Morales,J.R.
  TITLE     Mutation of vsx genes in zebrafish highlights the robustness of the
            retinal specification network
  JOURNAL   Elife 12, e85594 (2023)
   PUBMED   37227126
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1587)
  AUTHORS   Shainer,I., Kuehn,E., Laurell,E., Al Kassar,M., Mokayes,N.,
            Sherman,S., Larsch,J., Kunst,M. and Baier,H.
  TITLE     A single-cell resolution gene expression atlas of the larval
            zebrafish brain
  JOURNAL   Sci Adv 9 (8), eade9909 (2023)
   PUBMED   36812331
REFERENCE   4  (bases 1 to 1587)
  AUTHORS   Jin,M., Zhang,H., Xu,B., Li,Y., Qin,H., Yu,S. and He,J.
  TITLE     Jag2b-Notch3/1b-mediated neuron-to-glia crosstalk controls retinal
            gliogenesis
  JOURNAL   EMBO Rep 23 (10), e54922 (2022)
   PUBMED   36047082
  REMARK    Erratum:[EMBO Rep. 2023 Apr 5;24(4):e57072. doi:
            10.15252/embr.202357072. PMID: 37016940]
REFERENCE   5  (bases 1 to 1587)
  AUTHORS   Gao,M., Hu,J., Zhu,Y., Wang,X., Zeng,S., Hong,Y. and Zhao,G.
  TITLE     Ferroptosis and Apoptosis Are Involved in the Formation of
            L-Selenomethionine-Induced Ocular Defects in Zebrafish Embryos
  JOURNAL   Int J Mol Sci 23 (9), 4783 (2022)
   PUBMED   35563172
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1587)
  AUTHORS   D'Autilia,S., Decembrini,S., Casarosa,S., He,R.Q., Barsacchi,G.,
            Cremisi,F. and Andreazzoli,M.
  TITLE     Cloning and developmental expression of the Xenopus homeobox gene
            Xvsx1
  JOURNAL   Dev Genes Evol 216 (12), 829-834 (2006)
   PUBMED   17103185
REFERENCE   7  (bases 1 to 1587)
  AUTHORS   Wan,L., Almers,W. and Chen,W.
  TITLE     Two ribeye genes in teleosts: the role of Ribeye in ribbon
            formation and bipolar cell development
  JOURNAL   J Neurosci 25 (4), 941-949 (2005)
   PUBMED   15673675
REFERENCE   8  (bases 1 to 1587)
  AUTHORS   Shen,Y.C. and Raymond,P.A.
  TITLE     Zebrafish cone-rod (crx) homeobox gene promotes retinogenesis
  JOURNAL   Dev Biol 269 (1), 237-251 (2004)
   PUBMED   15081370
REFERENCE   9  (bases 1 to 1587)
  AUTHORS   Kurtzman,A.L. and Schechter,N.
  TITLE     Ubc9 interacts with a nuclear localization signal and mediates
            nuclear localization of the paired-like homeobox protein Vsx-1
            independent of SUMO-1 modification
  JOURNAL   Proc Natl Acad Sci U S A 98 (10), 5602-5607 (2001)
   PUBMED   11331779
REFERENCE   10 (bases 1 to 1587)
  AUTHORS   Kurtzman,A.L., Gregori,L., Haas,A.L. and Schechter,N.
  TITLE     Ubiquitination and degradation of the zebrafish paired-like
            homeobox protein VSX-1
  JOURNAL   J Neurochem 75 (1), 48-55 (2000)
   PUBMED   10854246
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AF025348.2.
            
            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 :: AF025348.2 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA4476799 [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1587
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="17"
                     /map="17"
     gene            1..1587
                     /gene="vsx1"
                     /note="visual system homeobox 1 homolog, chx10-like"
                     /db_xref="GeneID:30598"
                     /db_xref="ZFIN:ZDB-GENE-990415-205"
     misc_feature    10..12
                     /gene="vsx1"
                     /note="upstream in-frame stop codon"
     CDS             31..1065
                     /gene="vsx1"
                     /note="transcription factor VSX1; visual system homeobox 1
                     protein; etID309864.17; paired-like homeobox protein"
                     /codon_start=1
                     /product="visual system homeobox 1"
                     /protein_id="NP_571408.1"
                     /db_xref="GeneID:30598"
                     /db_xref="ZFIN:ZDB-GENE-990415-205"
                     /translation="

MTGREEATDEKPKVKLYPSFGIDKSRLNGSGFRSKGFAITDLLGLESELQPHQSGPGAGPNGEGQSAAVGGFSFPGGSLPLGLGFLCSLAAQQPPGAPCFLPSHIPLLQSRTESHFMQNLEQQRDVYSDDDCLSGDRNDGKNSGNSQKRKKRRHRTVFTSHQLEELEKAFNEAHYPDVYAREMLAMKTELPEDRIQVWFQNRRAKWRKREKCWGRSSVMAEYGLYGAMVRHSIPLPESIINSAKSGMMGSCAPWLLGEPAGMHKKSMEIVKKAPGTPESTHSDTYSEEHKGKDSDTTWSSGANGADDSEDMAIDLSSTSKQENKSTLKRSPPRTENSSDSENES"

     misc_feature    139..162
                     /gene="vsx1"
                     /note="propagated from UniProtKB/Swiss-Prot (O42250.2);
                     Region: Octapeptide motif"
     misc_feature    175..240
                     /gene="vsx1"
                     /note="propagated from UniProtKB/Swiss-Prot (O42250.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    331..>693
                     /gene="vsx1"
                     /note="Homeodomain-containing transcription factor
                     [Transcription]; Region: COG5576"
                     /db_xref="CDD:227863"
     misc_feature    409..498
                     /gene="vsx1"
                     /note="propagated from UniProtKB/Swiss-Prot (O42250.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    469..483
                     /gene="vsx1"
                     /note="propagated from UniProtKB/Swiss-Prot (O42250.2);
                     Region: Nuclear localization signal.
                     /evidence=ECO:0000269|PubMed:11331779"
     misc_feature    484..654
                     /gene="vsx1"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     misc_feature    847..1062
                     /gene="vsx1"
                     /note="propagated from UniProtKB/Swiss-Prot (O42250.2);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
ORIGIN      

ggcacgaggtgaattaaagaaactgccaccatgacgggaagagaagaagctacagatgaaaaacctaaagttaaactttacccttcgttcggaatcgacaaatcacgtctgaatggatctggatttcggtccaaagggttcgcaatcacagatctcctgggtctggagtcggaacttcagccgcaccagtcaggtccaggcgcggggcccaatggagagggccagagcgcggcggttggaggattttctttcccgggaggatctttgcccttgggcttggggtttctgtgtagtttggcggcgcaacagcctcctggagccccgtgttttctcccgagccacatccctctgttgcagtcacggacggagagccacttcatgcagaatctggagcagcaaagggacgtttactccgatgatgactgcctttccggtgatcgcaatgatggaaaaaactcagggaactctcaaaagaggaaaaagagaaggcacaggacagttttcacctcccatcaacttgaggaactagagaaagccttcaatgaagcacactatccagacgtttacgcgagagaaatgctggcaatgaagacagagctaccagaggacaggatacaggtatggtttcaaaaccggcgtgcaaagtggaggaaaagggaaaagtgctggggccgtagcagcgtgatggcagagtatgggctgtatggagccatggtgcgccactccattccactcccagaatccatcatcaactctgccaagagcgggatgatgggctcatgcgctccctggcttctaggtgagccagcaggaatgcacaaaaagtctatggaaattgtgaagaaagctcctggcacgcctgaatcgacacattcagatacatattcagaggaacacaaagggaaagacagcgacacgacatggtcaagcggagctaatggagcggacgattcagaagacatggcaatagatttgtctagcacttcaaaacaagagaacaaaagcactttgaaaagatctccgcctcgcacagaaaacagcagcgattctgaaaatgagagttaaaaatggacctcaatatatggacagttttgaagagcacgtgctgtacaaggactatcagttaataggatgtctcaccttttgtttgtttgcatttctgtgtcatttaagggtttttatgttgttgcttatcaaataattgaatactagagactgttttattctgaattattttatgtttcatgtaaatagtgtttaaaaagtttgcatttatgggcattatccatctaattttaagtaagttcccatattttattttttctctgtcaaaaaaatgctgtaaggtgattacttgttcaccgctactgtgaatgtcatatttccctgttaaaatacagcatgtgtctgggtaacagaaatgattttaaagcactttacctgctgtgatgatgaatgttttgcattgataagtgtcatcaacagagcaatataatgccagcaaaaaaagaaatccacatcaccacacacacaaaaaataataactaaataaacatattttatgcttttgaaaaaaaaaaaaaaaaa

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