LOCUS       NM_131194               1542 bp    mRNA    linear   VRT 01-JUN-2024
DEFINITION  Danio rerio homeobox A13b (hoxa13b), mRNA.
ACCESSION   NM_131194 XM_005157955
VERSION     NM_131194.2
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 1542)
  AUTHORS   Cumplido,N., Arratia,G., Desvignes,T., Munoz-Sanchez,S.,
            Postlethwait,J.H. and Allende,M.L.
  TITLE     Hox genes control homocercal caudal fin development and evolution
  JOURNAL   Sci Adv 10 (3), eadj5991 (2024)
   PUBMED   38241378
REFERENCE   2  (bases 1 to 1542)
  AUTHORS   Xue,S., Ly,T.T.N., Vijayakar,R.S., Chen,J., Ng,J., Mathuru,A.S.,
            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   3  (bases 1 to 1542)
  AUTHORS   Weiss,J.M., Hunter,M.V., Cruz,N.M., Baggiolini,A., Tagore,M.,
            Ma,Y., Misale,S., Marasco,M., Simon-Vermot,T., Campbell,N.R.,
            Newell,F., Wilmott,J.S., Johansson,P.A., Thompson,J.F., Long,G.V.,
            Pearson,J.V., Mann,G.J., Scolyer,R.A., Waddell,N., Montal,E.D.,
            Huang,T.H., Jonsson,P., Donoghue,M.T.A., Harris,C.C., Taylor,B.S.,
            Xu,T., Chaligne,R., Shliaha,P.V., Hendrickson,R., Jungbluth,A.A.,
            Lezcano,C., Koche,R., Studer,L., Ariyan,C.E., Solit,D.B.,
            Wolchok,J.D., Merghoub,T., Rosen,N., Hayward,N.K. and White,R.M.
  TITLE     Anatomic position determines oncogenic specificity in melanoma
  JOURNAL   Nature 604 (7905), 354-361 (2022)
   PUBMED   35355015
REFERENCE   4  (bases 1 to 1542)
  AUTHORS   Banu,S., Gaur,N., Nair,S., Ravikrishnan,T., Khan,S., Mani,S.,
            Bharathi,S., Mandal,K., Kuram,N.A., Vuppaladadium,S., Ravi,R.,
            Murthy,C.L.N., Quoseena,M., Babu,N.S. and Idris,M.M.
  TITLE     Understanding the complexity of epimorphic regeneration in
            zebrafish caudal fin tissue: A transcriptomic and proteomic
            approach
  JOURNAL   Genomics 114 (2), 110300 (2022)
   PUBMED   35134499
REFERENCE   5  (bases 1 to 1542)
  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   6  (bases 1 to 1542)
  AUTHORS   Metscher,B.D., Takahashi,K., Crow,K., Amemiya,C., Nonaka,D.F. and
            Wagner,G.P.
  TITLE     Expression of Hoxa-11 and Hoxa-13 in the pectoral fin of a basal
            ray-finned fish, Polyodon spathula: implications for the origin of
            tetrapod limbs
  JOURNAL   Evol Dev 7 (3), 186-195 (2005)
   PUBMED   15876191
REFERENCE   7  (bases 1 to 1542)
  AUTHORS   Santini,S. and Bernardi,G.
  TITLE     Organization and base composition of tilapia Hox genes:
            implications for the evolution of Hox clusters in fish
  JOURNAL   Gene 346, 51-61 (2005)
   PUBMED   15716008
REFERENCE   8  (bases 1 to 1542)
  AUTHORS   Chiu,C.H., Dewar,K., Wagner,G.P., Takahashi,K., Ruddle,F.,
            Ledje,C., Bartsch,P., Scemama,J.L., Stellwag,E., Fried,C.,
            Prohaska,S.J., Stadler,P.F. and Amemiya,C.T.
  TITLE     Bichir HoxA cluster sequence reveals surprising trends in
            ray-finned fish genomic evolution
  JOURNAL   Genome Res 14 (1), 11-17 (2004)
   PUBMED   14707166
REFERENCE   9  (bases 1 to 1542)
  AUTHORS   Amores,A., Suzuki,T., Yan,Y.L., Pomeroy,J., Singer,A., Amemiya,C.
            and Postlethwait,J.H.
  TITLE     Developmental roles of pufferfish Hox clusters and genome evolution
            in ray-fin fish
  JOURNAL   Genome Res 14 (1), 1-10 (2004)
   PUBMED   14707165
REFERENCE   10 (bases 1 to 1542)
  AUTHORS   Chiu,C.H., Amemiya,C., Dewar,K., Kim,C.B., Ruddle,F.H. and
            Wagner,G.P.
  TITLE     Molecular evolution of the HoxA cluster in the three major
            gnathostome lineages
  JOURNAL   Proc Natl Acad Sci U S A 99 (8), 5492-5497 (2002)
   PUBMED   11943847
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            BC090761.1.
            
            On or before Jun 18, 2015 this sequence version replaced
            XM_005157955.2, NM_131194.1.
            
            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 :: BC090761.1, EV762052.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505371
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-1542              BC090761.1         5-1546
FEATURES             Location/Qualifiers
     source          1..1542
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Singapore"
                     /db_xref="taxon:7955"
                     /chromosome="16"
                     /map="16"
     gene            1..1542
                     /gene="hoxa13b"
                     /gene_synonym="Hoxa-13; HOXA13; wu:fa66g07; zgc:110514"
                     /note="homeobox A13b"
                     /db_xref="GeneID:30438"
                     /db_xref="ZFIN:ZDB-GENE-980526-365"
     exon            1..677
                     /gene="hoxa13b"
                     /gene_synonym="Hoxa-13; HOXA13; wu:fa66g07; zgc:110514"
                     /inference="alignment:Splign:2.1.0"
     CDS             50..919
                     /gene="hoxa13b"
                     /gene_synonym="Hoxa-13; HOXA13; wu:fa66g07; zgc:110514"
                     /note="hox-A13; homeobox gene A-13b; homeo box A13b"
                     /codon_start=1
                     /product="homeobox protein Hox-A13b"
                     /protein_id="NP_571269.2"
                     /db_xref="GeneID:30438"
                     /db_xref="ZFIN:ZDB-GENE-980526-365"
                     /translation="

MTASLLLHSRWIDPVMFLYDNGLDDMSKNMEGFVGGNFAANQCRNLIAHPSTLAPSTTYTSSEVPVSGMGEPVKQCSPCSAVQNTPSASLPYGYFGGSYYPCRMPKSCTQPTTYGEKYMDTSVSGEEFPSRAKEFAFYQGYSSGPYQPVPSYLDVPVVPALSAPSEPRHESLLPVETYQPWAITNGWSSPVYCPKDQTQSSTLWKSSIQDTVSGTDGASVRRGRKKRVPYTKVQLKELEREYATNKFITKDKRRRISAHTNLTERQVTIWFQNRRVKEKKVVNKYKGIS"

     misc_feature    128..442
                     /gene="hoxa13b"
                     /gene_synonym="Hoxa-13; HOXA13; wu:fa66g07; zgc:110514"
                     /note="Hox protein A13 N terminal; Region: HoxA13_N;
                     pfam12284"
                     /db_xref="CDD:463521"
     misc_feature    719..889
                     /gene="hoxa13b"
                     /gene_synonym="Hoxa-13; HOXA13; wu:fa66g07; zgc:110514"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            678..1542
                     /gene="hoxa13b"
                     /gene_synonym="Hoxa-13; HOXA13; wu:fa66g07; zgc:110514"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

agtcttggggaattctaaaagagctgctgggctccatgtagggcgtgctatgacagcgtctttactcctccattcccgctggattgacccggtgatgtttctctatgacaacggtttggatgatatgagcaaaaacatggaaggatttgtgggaggcaattttgctgcgaaccagtgtaggaatctcattgcccatccgtctactttggctccgagtacaacctacacatcgagtgaggtgccagtgtcgggcatgggagagcctgtcaaacaatgcagcccgtgttcggccgtgcaaaataccccaagtgcttctttgccctatggatattttggcggcagctattacccgtgtaggatgcccaagtcctgcacgcaacccaccacatatggagaaaaatacatggacacttctgtttctggagaggagtttccttctcgagcaaaggaatttgctttctaccagggctactcgtctggcccttaccagcctgtaccaagttaccttgacgtgccagttgtacctgcgctgagcgctccttcggaaccgagacatgaatctctactgcctgtggaaacgtaccagccgtgggcaatcactaacgggtggagcagtccagtgtactgcccgaaagatcaaacacagtcaagtaccttgtggaaatcgtctatccaagataccgtgtcaggtaccgatggagcctcagtacgtcgagggagaaagaagcgggttccctacaccaaggttcaattgaaggaactagaacgagaatatgccacaaataagttcatcacaaaggacaaacgaagaaggatatctgctcacacaaacctgaccgagcgacaagtgaccatctggtttcagaacaggcgggtaaaagaaaagaaagtggtcaacaagtacaagggcatcagttaagtcctggagattattaaaactgaaatacaaaaagtggtgtaaatggaaggacaatcaccattatttattctgaaatccattccaccatctgttccacgtcacgagactatgcggaggtgcgcaggagggaaaatgtaaatttcaatttcctgtgtacatattgccaagacactgacattgatcaaacgcaaagatagtgctcaagaacagtgtatccatattcaccacttgatttttctttcctttttaatatataactttctttcaaagacgtggaaagaatgtaaattcattaatgccctttcaacacagtgaaagaaaatcagtgaagtaaacgaagacaaatccttgcaattcgtgtttttattttaatttacttttaaaacatcacctttccataaaaaaacaactgtacatttatgactgtggatttgcatgctacgtgaactgtacactaaagttaccctaaacaatgacaaaaaagctgtttgcgctttaattttctattaatttaattttttaatcccgtgcgtacgtttgtaaatacgaagttgctttcaggcacctgcaaagtataaaaatcatgtgttattgcagacagtatacaaataaaacgccccatg

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