LOCUS       NM_131207               1679 bp    mRNA    linear   VRT 24-NOV-2024
DEFINITION  Danio rerio LIM homeobox 1b (lhx1b), mRNA.
ACCESSION   NM_131207
VERSION     NM_131207.1
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 1679)
  AUTHORS   Itoh,T., Uehara,M., Yura,S., Wang,J.C., Fujii,Y., Nakanishi,A.,
            Shimizu,T. and Hibi,M.
  TITLE     Foxp and Skor family proteins control differentiation of Purkinje
            cells from Ptf1a- and Neurog1-expressing progenitors in zebrafish
  JOURNAL   Development 151 (7) (2024)
   PUBMED   38456494
REFERENCE   2  (bases 1 to 1679)
  AUTHORS   de la Garza,G., Schleiffarth,J.R., Dunnwald,M., Mankad,A.,
            Weirather,J.L., Bonde,G., Butcher,S., Mansour,T.A., Kousa,Y.A.,
            Fukazawa,C.F., Houston,D.W., Manak,J.R., Schutte,B.C., Wagner,D.S.
            and Cornell,R.A.
  TITLE     Interferon regulatory factor 6 promotes differentiation of the
            periderm by activating expression of Grainyhead-like 3
  JOURNAL   J Invest Dermatol 133 (1), 68-77 (2013)
   PUBMED   22931925
  REMARK    Erratum:[J Invest Dermatol. 2013 Mar;133(3):859]
REFERENCE   3  (bases 1 to 1679)
  AUTHORS   O'Quin,K.E., Yoshizawa,M., Doshi,P. and Jeffery,W.R.
  TITLE     Quantitative genetic analysis of retinal degeneration in the blind
            cavefish Astyanax mexicanus
  JOURNAL   PLoS One 8 (2), e57281 (2013)
   PUBMED   23437360
REFERENCE   4  (bases 1 to 1679)
  AUTHORS   Filippi,A., Jainok,C. and Driever,W.
  TITLE     Analysis of transcriptional codes for zebrafish dopaminergic
            neurons reveals essential functions of Arx and Isl1 in prethalamic
            dopaminergic neuron development
  JOURNAL   Dev Biol 369 (1), 133-149 (2012)
   PUBMED   22728160
REFERENCE   5  (bases 1 to 1679)
  AUTHORS   Ganz,J., Kaslin,J., Freudenreich,D., Machate,A., Geffarth,M. and
            Brand,M.
  TITLE     Subdivisions of the adult zebrafish subpallium by molecular marker
            analysis
  JOURNAL   J Comp Neurol 520 (3), 633-655 (2012)
   PUBMED   21858823
REFERENCE   6  (bases 1 to 1679)
  AUTHORS   Hong,S.K., Levin,C.S., Brown,J.L., Wan,H., Sherman,B.T., Huang
            da,W., Lempicki,R.A. and Feldman,B.
  TITLE     Pre-gastrula expression of zebrafish extraembryonic genes
  JOURNAL   BMC Dev Biol 10, 42 (2010)
   PUBMED   20423468
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 1679)
  AUTHORS   Wong,K.S., Proulx,K., Rost,M.S. and Sumanas,S.
  TITLE     Identification of vasculature-specific genes by microarray analysis
            of Etsrp/Etv2 overexpressing zebrafish embryos
  JOURNAL   Dev Dyn 238 (7), 1836-1850 (2009)
   PUBMED   19504456
REFERENCE   8  (bases 1 to 1679)
  AUTHORS   Miyasaka,N., Morimoto,K., Tsubokawa,T., Higashijima,S., Okamoto,H.
            and Yoshihara,Y.
  TITLE     From the olfactory bulb to higher brain centers: genetic
            visualization of secondary olfactory pathways in zebrafish
  JOURNAL   J Neurosci 29 (15), 4756-4767 (2009)
   PUBMED   19369545
REFERENCE   9  (bases 1 to 1679)
  AUTHORS   Woods,I.G., Wilson,C., Friedlander,B., Chang,P., Reyes,D.K.,
            Nix,R., Kelly,P.D., Chu,F., Postlethwait,J.H. and Talbot,W.S.
  TITLE     The zebrafish gene map defines ancestral vertebrate chromosomes
  JOURNAL   Genome Res 15 (9), 1307-1314 (2005)
   PUBMED   16109975
REFERENCE   10 (bases 1 to 1679)
  AUTHORS   Gates,M.A., Kim,L., Egan,E.S., Cardozo,T., Sirotkin,H.I.,
            Dougan,S.T., Lashkari,D., Abagyan,R., Schier,A.F. and Talbot,W.S.
  TITLE     A genetic linkage map for zebrafish: comparative analysis and
            localization of genes and expressed sequences
  JOURNAL   Genome Res 9 (4), 334-347 (1999)
   PUBMED   10207156
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from AF001299.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AF001299.1, BC162280.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA3505370, SAMEA3505371
                                           [ECO:0000348]
            ##Evidence-Data-END##
FEATURES             Location/Qualifiers
     source          1..1679
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /db_xref="taxon:7955"
                     /chromosome="5"
                     /map="5"
     gene            1..1679
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /note="LIM homeobox 1b"
                     /db_xref="GeneID:30454"
                     /db_xref="ZFIN:ZDB-GENE-980526-116"
     exon            1..208
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /inference="alignment:Splign:2.1.0"
     CDS             39..1247
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /function="transcription factor"
                     /function="DNA binding protein"
                     /note="LIM homeobox protein 6"
                     /codon_start=1
                     /product="LIM/homeobox protein Lhx1b"
                     /protein_id="NP_571282.1"
                     /db_xref="GeneID:30454"
                     /db_xref="ZFIN:ZDB-GENE-980526-116"
                     /translation="

MVHCAGCERPILDRFLLSVLDRAWHAKCVQCCDCKCSLTDRCFSREGRLYCKNDFFRRYGTKCGGCAQGISPSDLVRKARSKVFHLNCFTCIMCNKQLSTGEELYILDEYKFVCKEDYLNNSNGKDTNLLSITTCSDPSLSPESQDPQDDYKDSESGPMSDKETCNNENDEQNLGGKRRGPRTTIKAKQLETLKAAFAATPKPTRHIREQLAQETGLNMRVIQVWFQNRRSKERRMKQLSALGARRHMFFRSPRRMRALGDRMEPGELMANGHFSFYGDYQSEYYGPGSNYDYFPQGPPSSQAHTPGDLGFMPSSGPAGTPLGNMDPHHGAHHPSNDTQCFSEMISHHPGDSPSPEPSAPASIHSISTDMCDSTPPFTSLNSLSANGYSNQLSSEMNEGTVW"

     misc_feature    48..203
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /note="The first LIM domain of Lhx1 (also known as Lim1)
                     and Lhx5; Region: LIM1_Lhx1_Lhx5; cd09367"
                     /db_xref="CDD:188753"
     misc_feature    order(48..50,57..59,111..113,120..122,129..131,138..140,
                     189..191,198..200)
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:188753"
     misc_feature    225..392
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /note="The second LIM domain of Lhx1 (also known as Lim1)
                     and Lhx5; Region: LIM2_Lhx1_Lhx5; cd09375"
                     /db_xref="CDD:188761"
     misc_feature    order(225..227,234..236,291..293,300..302,309..311,
                     318..320,378..380,387..389)
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:188761"
     misc_feature    573..743
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            209..432
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /inference="alignment:Splign:2.1.0"
     exon            433..707
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /inference="alignment:Splign:2.1.0"
     exon            708..873
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /inference="alignment:Splign:2.1.0"
     exon            874..1673
                     /gene="lhx1b"
                     /gene_synonym="lim6"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

cgatttttgcttctcaccaaggactggagtctcaaaacatggtccactgtgctggatgcgagaggcctattctagacagatttctgctgagcgtcttggacagagcctggcatgcaaaatgcgtgcaatgctgtgactgtaaatgcagtttaactgatagatgtttttctagagaaggaaggttatactgcaaaaacgactttttcagacgttatggcactaaatgtggaggctgcgcgcagggaatctcgcccagtgatctcgttcggaaagcgcgaagcaaagtctttcacttgaactgtttcacctgcattatgtgcaataaacagctttccaccggcgaagaactgtacatcctagatgaatataaatttgtctgcaaggaggattacttgaataacagcaatggaaaagacacaaaccttctgtcaattaccacctgcagtgacccgagcttatctccagagtctcaagacccacaggatgattacaaagactctgagagtggacccatgtcagacaaggagacctgcaacaatgaaaatgacgaacagaatctgggtggcaaacgtcgcgggcctcgaactacaatcaaagccaagcagctggagacactgaaagctgctttcgccgccacccccaaacccaccagacacatacgagagcagctggcgcaggagaccggcctcaatatgcgcgtaattcaggtgtggtttcagaatcggcgctctaaagagaggcgcatgaagcagctgagcgcactgggcgccaggagacacatgttcttccgcagcccgaggagaatgagagcactgggcgaccgaatggaaccaggagagctcatggccaacggacatttctctttttatggcgactatcaaagtgaatactatggcccggggtcaaactatgactacttccctcagggtccaccgtcatcccaagcccatactccaggtgatctaggattcatgccctcttctggcccagctggaacgcctctagggaacatggacccccatcacggagcacaccacccctccaatgacacacaatgctttagtgagatgatatcacatcaccctggggactctcctagtccagagcccagcgcaccagcctccatccacagcatctccactgacatgtgtgactccactccacccttcacatccctgaactcgctcagtgccaacggatacagcaatcaactgtcctcagagatgaacgaggggaccgtctggtagcaaaaaggcagacttattcaggacaaaaacatgtggatatgtactattcatctgtgattttttttataacaatggtatttctatctaggtaatttattgatataactgtctatttattcgttcatttggttactatttatttatttatttatttatatatatatatttaagcgacaattgtgtattttgaaagtggaatgtcaaatgtgggtctgcagaccttatagctgtgctatagacaacgacagtttaaaaaaagctgaaacagaatgtttatatttacaacacctggtgtgtctgttcacatgtgtatcataacctgacctctttgcctttcaaggctttgccataatgacacttgaaatcatctcacaccaaaagttttctttgctctccacactcttaaaaataaaggttccaaaaagaaaaaaa

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