LOCUS       NM_198209               1180 bp    mRNA    linear   VRT 27-APR-2025
DEFINITION  Danio rerio HOP homeobox (hopx), mRNA.
ACCESSION   NM_198209
VERSION     NM_198209.2
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 1180)
  AUTHORS   Friedman,C.E., Cheetham,S.W., Negi,S., Mills,R.J., Ogawa,M.,
            Redd,M.A., Chiu,H.S., Shen,S., Sun,Y., Mizikovsky,D., Bouveret,R.,
            Chen,X., Voges,H.K., Paterson,S., De Angelis,J.E., Andersen,S.B.,
            Cao,Y., Wu,Y., Jafrani,Y.M.A., Yoon,S., Faulkner,G.J., Smith,K.A.,
            Porrello,E., Harvey,R.P., Hogan,B.M., Nguyen,Q., Zeng,J.,
            Kikuchi,K., Hudson,J.E. and Palpant,N.J.
  TITLE     HOPX-associated molecular programs control cardiomyocyte cell
            states underpinning cardiac structure and function
  JOURNAL   Dev Cell 59 (1), 91-107 (2024)
   PUBMED   38091997
REFERENCE   2  (bases 1 to 1180)
  AUTHORS   Cosacak,M.I., Bhattarai,P., Reinhardt,S., Petzold,A., Dahl,A.,
            Zhang,Y. and Kizil,C.
  TITLE     Single-Cell Transcriptomics Analyses of Neural Stem Cell
            Heterogeneity and Contextual Plasticity in a Zebrafish Brain Model
            of Amyloid Toxicity
  JOURNAL   Cell Rep 27 (4), 1307-1318 (2019)
   PUBMED   31018142
REFERENCE   3  (bases 1 to 1180)
  AUTHORS   Lush,M.E., Diaz,D.C., Koenecke,N., Baek,S., Boldt,H., St
            Peter,M.K., Gaitan-Escudero,T., Romero-Carvajal,A.,
            Busch-Nentwich,E.M., Perera,A.G., Hall,K.E., Peak,A., Haug,J.S. and
            Piotrowski,T.
  TITLE     scRNA-Seq reveals distinct stem cell populations that drive hair
            cell regeneration after loss of Fgf and Notch signaling
  JOURNAL   Elife 8, e44431 (2019)
   PUBMED   30681411
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 1180)
  AUTHORS   Pasquier,J., Cabau,C., Nguyen,T., Jouanno,E., Severac,D.,
            Braasch,I., Journot,L., Pontarotti,P., Klopp,C., Postlethwait,J.H.,
            Guiguen,Y. and Bobe,J.
  TITLE     Gene evolution and gene expression after whole genome duplication
            in fish: the PhyloFish database
  JOURNAL   BMC Genomics 17, 368 (2016)
   PUBMED   27189481
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 1180)
  AUTHORS   Elkon,R., Milon,B., Morrison,L., Shah,M., Vijayakumar,S.,
            Racherla,M., Leitch,C.C., Silipino,L., Hadi,S., Weiss-Gayet,M.,
            Barras,E., Schmid,C.D., Ait-Lounis,A., Barnes,A., Song,Y.,
            Eisenman,D.J., Eliyahu,E., Frolenkov,G.I., Strome,S.E., Durand,B.,
            Zaghloul,N.A., Jones,S.M., Reith,W. and Hertzano,R.
  TITLE     RFX transcription factors are essential for hearing in mice
  JOURNAL   Nat Commun 6, 8549 (2015)
   PUBMED   26469318
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1180)
  AUTHORS   Chen,F., Kook,H., Milewski,R., Gitler,A.D., Lu,M.M., Li,J.,
            Nazarian,R., Schnepp,R., Jen,K., Biben,C., Runke,G., Mackay,J.P.,
            Novotny,J., Schwartz,R.J., Harvey,R.P., Mullins,M.C. and
            Epstein,J.A.
  TITLE     Hop is an unusual homeobox gene that modulates cardiac development
  JOURNAL   Cell 110 (6), 713-723 (2002)
   PUBMED   12297045
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from BC096856.1.
            
            On Jun 12, 2005 this sequence version replaced NM_198209.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: BC096856.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505371, SAMEA3505373
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1180
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="14"
                     /map="14"
     gene            1..1180
                     /gene="hopx"
                     /gene_synonym="hop"
                     /note="HOP homeobox"
                     /db_xref="GeneID:386589"
                     /db_xref="ZFIN:ZDB-GENE-031016-2"
     exon            1..25
                     /gene="hopx"
                     /gene_synonym="hop"
                     /inference="alignment:Splign:2.1.0"
     exon            26..303
                     /gene="hopx"
                     /gene_synonym="hop"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    55..57
                     /gene="hopx"
                     /gene_synonym="hop"
                     /note="upstream in-frame stop codon"
     CDS             148..381
                     /gene="hopx"
                     /gene_synonym="hop"
                     /codon_start=1
                     /product="homeodomain-only protein"
                     /protein_id="NP_937852.1"
                     /db_xref="GeneID:386589"
                     /db_xref="ZFIN:ZDB-GENE-031016-2"
                     /translation="

MSANGNAALGVRLTEDQVKVLEENFTKVSKHPDETTLMLIAAECGLSEEQTAVWFRMRNAQWRKAEGLPAELGSVKD"

     misc_feature    178..339
                     /gene="hopx"
                     /gene_synonym="hop"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            304..1144
                     /gene="hopx"
                     /gene_synonym="hop"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gcagatggagtttggacatcatcagcttttcttctttcagtctgacgcttgttttgaacactttggagtttattttgcccggcacgcagaagcggacatcggtcaaccgtgattctgctctgctcgtttgctgttcggagtttaaagatgagcgcgaatggaaacgcggcgttgggggtgcgtttaacggaggatcaggttaaagttctggaggagaatttcacgaaggtcagcaaacacccggacgaaaccacgctgatgctgatcgcggcggagtgcgggctgagcgaggagcagacagcggtatggttcagaatgagaaatgcccagtggaggaaagctgaaggacttccagctgaactgggctcagtgaaggactgacggaggagcttcattcttcaccttctctctttctgagtctgctccagtgattgatcctctcactgtctctcgtttttctcatctgaggatgttttctgaaagggatcgttcacacaaaaattacagttatcatcgtttgctctcatttattaaacatccttaatggtttcaaacctttatgagcttctttattgtcaaacacgaaaggagatattttgaagaatgctaaaaaatcggtaaccatgacttctataatgctatggaagtcaatggttaccgatttttcagcattatactatggatataactgtgatgtctatcatactatggatatcatatttttcagataacactatagaagtcaatggttaccggttttcaccttttctcaaatcatctccttttgtgtttgacagaagaatgaaggtttttaaacacttaagggagagtaaatagtgagtctctattttttaagtttgatctgaacgctcagtgtctgcgtatgccacatatatatatattatttttttgccataatagctatcatatgtatgtgaatgagctaaatgtaagacttgtatataaagaattgcacatgttggttttatttcatgagttttcaaggtttctttcttcattttaggatcatagataagaaataaactcagcagcaagtgtaaaactgtgtgcttcatctataatcctacagaaaaattaaaaataatctagatttctttaataaatgattaaatgaaggccaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaa

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