LOCUS       NM_001254944            1601 bp    mRNA    linear   VRT 26-DEC-2022
DEFINITION  Danio rerio homeobox C10a (hoxc10a), mRNA.
ACCESSION   NM_001254944 XM_003201219
VERSION     NM_001254944.1
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 1601)
  AUTHORS   Xue S, Ly TTN, Vijayakar RS, Chen J, Ng J, Mathuru AS, Magdinier F
            and Reversade B.
  TITLE     HOX epimutations driven by maternal SMCHD1/LRIF1 haploinsufficiency
            trigger homeotic transformations in genetically wildtype offspring
  JOURNAL   Nat Commun 13 (1), 3583 (2022)
   PUBMED   35739109
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1601)
  AUTHORS   Yamada K, Maeno A, Araki S, Kikuchi M, Suzuki M, Ishizaka M, Satoh
            K, Akama K, Kawabe Y, Suzuki K, Kobayashi D, Hamano N and Kawamura
            A.
  TITLE     An atlas of seven zebrafish hox cluster mutants provides insights
            into sub/neofunctionalization of vertebrate Hox clusters
  JOURNAL   Development 148 (11) (2021)
   PUBMED   34096572
REFERENCE   3  (bases 1 to 1601)
  AUTHORS   Malmstrom M, Britz R, Matschiner M, Torresen OK, Hadiaty RK, Yaakob
            N, Tan HH, Jakobsen KS, Salzburger W and Ruber L.
  TITLE     The Most Developmentally Truncated Fishes Show Extensive Hox Gene
            Loss and Miniaturized Genomes
  JOURNAL   Genome Biol Evol 10 (4), 1088-1103 (2018)
   PUBMED   29684203
REFERENCE   4  (bases 1 to 1601)
  AUTHORS   Payumo AY, McQuade LE, Walker WJ, Yamazoe S and Chen JK.
  TITLE     Tbx16 regulates hox gene activation in mesodermal progenitor cells
  JOURNAL   Nat Chem Biol 12 (9), 694-701 (2016)
   PUBMED   27376691
REFERENCE   5  (bases 1 to 1601)
  AUTHORS   Elkon R, Milon B, Morrison L, Shah M, Vijayakumar S, Racherla M,
            Leitch CC, Silipino L, Hadi S, Weiss-Gayet M, Barras E, Schmid CD,
            Ait-Lounis A, Barnes A, Song Y, Eisenman DJ, Eliyahu E, Frolenkov
            GI, Strome SE, Durand B, Zaghloul NA, Jones SM, 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 1601)
  AUTHORS   Winkler C and Moon RT.
  TITLE     Zebrafish mdk2, a novel secreted midkine, participates in posterior
            neurogenesis
  JOURNAL   Dev Biol 229 (1), 102-118 (2001)
   PUBMED   11133157
REFERENCE   7  (bases 1 to 1601)
  AUTHORS   Feldman B, Dougan ST, Schier AF and Talbot WS.
  TITLE     Nodal-related signals establish mesendodermal fate and trunk neural
            identity in zebrafish
  JOURNAL   Curr Biol 10 (9), 531-534 (2000)
   PUBMED   10801442
REFERENCE   8  (bases 1 to 1601)
  AUTHORS   Amores A, Force A, Yan YL, Joly L, Amemiya C, Fritz A, Ho RK,
            Langeland J, Prince V, Wang YL, Westerfield M, Ekker M and
            Postlethwait JH.
  TITLE     Zebrafish hox clusters and vertebrate genome evolution
  JOURNAL   Science 282 (5394), 1711-1714 (1998)
   PUBMED   9831563
REFERENCE   9  (bases 1 to 1601)
  AUTHORS   Prince VE, Joly L, Ekker M and Ho RK.
  TITLE     Zebrafish hox genes: genomic organization and modified colinear
            expression patterns in the trunk
  JOURNAL   Development 125 (3), 407-420 (1998)
   PUBMED   9425136
REFERENCE   10 (bases 1 to 1601)
  AUTHORS   Misof BY, Blanco MJ and Wagner GP.
  TITLE     PCR-survey of Hox-genes of the zebrafish: new sequence information
            and evolutionary implications
  JOURNAL   J Exp Zool 274 (3), 193-206 (1996)
   PUBMED   8882497
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BX005254.9.
            
            On Dec 18, 2011 this sequence version replaced XM_003201219.1.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on alignments.
            
            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.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-797               BX005254.9         129867-130663       c
            798-1601            BX005254.9         127297-128100       c
FEATURES             Location/Qualifiers
     source          1..1601
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="23"
                     /map="23"
     gene            1..1601
                     /gene="hoxc10a"
                     /gene_synonym="hoxc10; z-81"
                     /note="homeobox C10a"
                     /db_xref="GeneID:100535576"
                     /db_xref="ZFIN:ZDB-GENE-990415-110"
     exon            1..797
                     /gene="hoxc10a"
                     /gene_synonym="hoxc10; z-81"
                     /inference="alignment:Splign:2.1.0"
     CDS             89..1072
                     /gene="hoxc10a"
                     /gene_synonym="hoxc10; z-81"
                     /note="homeobox gene C-10; homeo box C10a"
                     /codon_start=1
                     /product="homeobox protein Hox-C10a"
                     /protein_id="NP_001241873.1"
                     /db_xref="GeneID:100535576"
                     /db_xref="ZFIN:ZDB-GENE-990415-110"
                     /translation="

MSCPNNVAANAFLMDSLVGGTSPFRGESYSSNSGMYMQTSAEYGCSMMGSFGIVGTPLSKRDDLQPSGMHLGSYQHSHYLSQRDTWIAGSKTYRGSQPVAQPLHPCSFPASNVKEEAIPCLYQPDIDSAKESGEKSTYIRLGDNNSHPNQSAVSTPDYFRRSQVYASERGHHGDEFGSDFNPIPRISTPVEALASDSCVKSSKARQHPEDKGGNTQEDDMDQRQTRKEESVSKTESYESKLEKATGNWLKAKSGRKKRCPYTKHQTLELEKEFLFNMYLTRERRLEISKSINLTDRQVKIWFQNRRMKLKKLNRESRVRELTGYSFN"

     misc_feature    851..1021
                     /gene="hoxc10a"
                     /gene_synonym="hoxc10; z-81"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            798..1601
                     /gene="hoxc10a"
                     /gene_synonym="hoxc10; z-81"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

caaaagatgtcagcgtcctactgtccttatcctcttcggcataaaggagattgttttgaatcaaaagaaaagcaagacaagtagcaaaatgtcatgcccgaacaacgtggcagccaacgcattcctgatggactcgctggtgggaggaacatctcctttcagaggtgagagctattcctctaactctggaatgtatatgcaaacgtctgcagaatatggttgctccatgatgggtagttttggcattgttggcacccctctctccaaacgggatgacctgcaaccgagtgggatgcatctcggcagctaccagcactcacattacctgtcgcagcgggacacttggatcgcaggctctaaaacttacagaggctcgcaacctgttgcccaacctttgcacccatgctcttttccagccagcaatgtaaaagaggaagcgattccttgtctttatcagcctgatatcgacagcgccaaggagtccggcgagaaatccacctacatccgtctgggagacaataacagccacccgaatcaaagcgctgtctccacccccgattatttccgacggagccaggtgtacgccagtgaaaggggccaccacggagatgagttcggctcggactttaatccaatacccagaatatccacgcctgttgaggcactagcgtcagattcatgtgtcaaaagcagcaaagcaaggcagcacccagaagacaagggagggaatacgcaggaagacgacatggatcagagacagactagaaaagaggagagtgtgtcaaaaacagagagttatgagtctaaattggaaaaagcaacggggaactggctaaaagcgaaaagtggtcgaaagaagaggtgtccgtacacaaagcatcaaacacttgagctggagaaggagttcttgttcaacatgtacttgactcgagagcgccgtctggagatcagcaagagtatcaacctcacagacagacaggtcaagatctggttccaaaacagacggatgaagctaaagaagctcaacagagaaagtcgcgtccgagagctaacaggctatagctttaactgagagcttgaaaacagacaaaaatgaaatatgaaattacacactctctctttcctcacgtctagccactatatattttttattcacacctccccctcatttgtgtttagtttttttaactcaacttacaatacatttcaatacagacttacaaatttataaaatagcaaagcactggctcatgactttcattgcaaagggactggtacaccctgcaaacgatattgcaaatagtttacatccaggcctaatttatcactgttgaacagacaagaacaataattgtaaatatacctatagcggaagaaaatgatgcttggtgcacatattcgtggaagatttgtaatattaaaagtcctttactcagaatatacgaacgagatgtctattcgatgtcttaggttagtttgtttgctgtcagtgcgcttgtcatacacaatgcgcgctctgtattttgcatgctctgttgttgacgtgtatttgtcaatttgatgtttaactcgagaggctaataaataaaacaggggattgg

//