LOCUS       NM_178138               2385 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens LIM homeobox 3 (LHX3), transcript variant 1, mRNA.
ACCESSION   NM_178138
VERSION     NM_178138.6
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 2385)
  AUTHORS   Sepehrimanesh,M. and Ding,B.
  TITLE     Generation and optimization of highly pure motor neurons from human
            induced pluripotent stem cells via lentiviral delivery of
            transcription factors
  JOURNAL   Am J Physiol Cell Physiol 319 (4), C771-C780 (2020)
   PUBMED   32783653
  REMARK    GeneRIF: Generation and optimization of highly pure motor neurons
            from human induced pluripotent stem cells via lentiviral delivery
            of transcription factors.
REFERENCE   2  (bases 1 to 2385)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   3  (bases 1 to 2385)
  AUTHORS   Huang,B., Tian,Z.F., Li,L.F., Fan,Y., Yin,H.Y., Li,Y., Mao,Q. and
            You,Z.L.
  TITLE     LHX3 is an advanced-stage prognostic biomarker and metastatic
            oncogene in hepatocellular carcinoma
  JOURNAL   Cancer Biomark 26 (1), 31-39 (2019)
   PUBMED   31306102
  REMARK    GeneRIF: LHX3 expression is significantly increased in carcinoma
            tissues, and associated with clinical stage and metastasis of
            patients. LHX3 expression is much higher in the advanced-stage
            patients than the early-stage patients, and is sharply increased in
            metastasic patients.
REFERENCE   4  (bases 1 to 2385)
  AUTHORS   Yaden,B.C., Garcia,M. 3rd, Smith,T.P. and Rhodes,S.J.
  TITLE     Two promoters mediate transcription from the human LHX3 gene:
            involvement of nuclear factor I and specificity protein 1
  JOURNAL   Endocrinology 147 (1), 324-337 (2006)
   PUBMED   16179410
  REMARK    GeneRIF: Specificity protein 1 is a regulator of both promoters
            through interaction with GC boxes and also, a distal element within
            intron 1a that is recognized by nuclear factor I is critical for
            hLHX3b promoter function.
REFERENCE   5  (bases 1 to 2385)
  AUTHORS   Sloop,K.W., Dwyer,C.J. and Rhodes,S.J.
  TITLE     An isoform-specific inhibitory domain regulates the LHX3 LIM
            homeodomain factor holoprotein and the production of a functional
            alternate translation form
  JOURNAL   J Biol Chem 276 (39), 36311-36319 (2001)
   PUBMED   11470784
  REMARK    GeneRIF: The Lhx3 gene encodes two isoforms, LHX3a and LHX3b, that
            differ in their amino-terminal sequences. A novel LHX3 protein
            (M2-LHX3) is identified and it is determined that this molecule is
            generated by an internal translation initiation codon.
REFERENCE   6  (bases 1 to 2385)
  AUTHORS   Parker,G.E., Sandoval,R.M., Feister,H.A., Bidwell,J.P. and
            Rhodes,S.J.
  TITLE     The homeodomain coordinates nuclear entry of the Lhx3
            neuroendocrine transcription factor and association with the
            nuclear matrix
  JOURNAL   J Biol Chem 275 (31), 23891-23898 (2000)
   PUBMED   10818088
REFERENCE   7  (bases 1 to 2385)
  AUTHORS   Schmitt,S., Biason-Lauber,A., Betts,D. and Schoenle,E.J.
  TITLE     Genomic structure, chromosomal localization, and expression pattern
            of the human LIM-homeobox3 (LHX 3) gene
  JOURNAL   Biochem Biophys Res Commun 274 (1), 49-56 (2000)
   PUBMED   10903894
REFERENCE   8  (bases 1 to 2385)
  AUTHORS   Sloop,K.W., Showalter,A.D., Von Kap-Herr,C., Pettenati,M.J. and
            Rhodes,S.J.
  TITLE     Analysis of the human LHX3 neuroendocrine transcription factor gene
            and mapping to the subtelomeric region of chromosome 9
  JOURNAL   Gene 245 (2), 237-243 (2000)
   PUBMED   10717474
REFERENCE   9  (bases 1 to 2385)
  AUTHORS   Sloop,K.W., Meier,B.C., Bridwell,J.L., Parker,G.E., Schiller,A.M.
            and Rhodes,S.J.
  TITLE     Differential activation of pituitary hormone genes by human Lhx3
            isoforms with distinct DNA binding properties
  JOURNAL   Mol Endocrinol 13 (12), 2212-2225 (1999)
   PUBMED   10598593
REFERENCE   10 (bases 1 to 2385)
  AUTHORS   Jurata,L.W., Pfaff,S.L. and Gill,G.N.
  TITLE     The nuclear LIM domain interactor NLI mediates homo- and
            heterodimerization of LIM domain transcription factors
  JOURNAL   J Biol Chem 273 (6), 3152-3157 (1998)
   PUBMED   9452425
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from AB593062.1, AL138781.13 and
            CK300529.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Nov 23, 2018 this sequence version replaced NM_178138.5.
            
            Summary: This gene encodes a member of a large family of proteins
            which carry the LIM domain, a unique cysteine-rich zinc-binding
            domain. The encoded protein is a transcription factor that is
            required for pituitary development and motor neuron specification.
            Mutations in this gene cause combined pituitary hormone deficiency
            3. Alternative splicing results in multiple transcript variants
            encoding different isoforms. [provided by RefSeq, Dec 2015].
            
            Transcript Variant: This variant (1) represents the shorter
            transcript. This transcript encodes two proteins; isoform a and
            M2-LHX3, which is generated by an internal translation initiation
            codon.
            
            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 :: AB593063.1, AB593062.1 [ECO:0000332]
            RNAseq introns              :: partial sample support SAMEA1968968
                                           [ECO:0000350]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000371748.10/ ENSP00000360813.4
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-223               AB593062.1         2-224
            224-224             AL138781.13        110600-110600       c
            225-2382            AB593062.1         226-2383
            2383-2385           CK300529.1         17-19               c
FEATURES             Location/Qualifiers
     source          1..2385
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="9"
                     /map="9q34.3"
     gene            1..2385
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /note="LIM homeobox 3"
                     /db_xref="GeneID:8022"
                     /db_xref="HGNC:HGNC:6595"
                     /db_xref="MIM:600577"
     exon            1..195
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /inference="alignment:Splign:2.1.0"
     CDS             117..1310
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /note="isoform a is encoded by transcript variant 1;
                     LIM/homeodomain protein LHX3; LIM homeobox protein 3;
                     LIM/homeobox protein Lhx3"
                     /codon_start=1
                     /product="LIM/homeobox protein Lhx3 isoform a"
                     /protein_id="NP_835258.1"
                     /db_xref="CCDS:CCDS6994.1"
                     /db_xref="GeneID:8022"
                     /db_xref="HGNC:HGNC:6595"
                     /db_xref="MIM:600577"
                     /translation="MLLETGLERDRARPGAAAVCTLGGTREIPLCAGCDQHILDRFIL
                     KALDRHWHSKCLKCSDCHTPLAERCFSRGESVYCKDDFFKRFGTKCAACQLGIPPTQV
                     VRRAQDFVYHLHCFACVVCKRQLATGDEFYLMEDSRLVCKADYETAKQREAEATAKRP
                     RTTITAKQLETLKSAYNTSPKPARHVREQLSSETGLDMRVVQVWFQNRRAKEKRLKKD
                     AGRQRWGQYFRNMKRSRGGSKSDKDSVQEGQDSDAEVSFPDEPSLAEMGPANGLYGSL
                     GEPTQALGRPSGALGNFSLEHGGLAGPEQYRELRPGSPYGVPPSPAAPQSLPGPQPLL
                     SSLVYPDTSLGLVPSGAPGGPPPMRVLAGNGPSSDLSTGSSGGYPDFPASPASWLDEV
                     DHAQF"
     exon            196..367
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /inference="alignment:Splign:2.1.0"
     exon            368..570
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /inference="alignment:Splign:2.1.0"
     exon            571..722
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /inference="alignment:Splign:2.1.0"
     exon            723..891
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /inference="alignment:Splign:2.1.0"
     exon            892..2385
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2362..2367
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /note="hexamer: AATAAA"
     polyA_site      2385
                     /gene="LHX3"
                     /gene_synonym="CPHD3; LIM3; M2-LHX3"
                     /note="major polyA site"
ORIGIN      
        1 agtggctccc gggctccctg ccccgcacga cgcggcggga cttgggagcc ccgaaccctc
       61 caggggacgc tgacctagga ggagcgcgtc tcgcgccact cggcctggtg gccgcgatgc
      121 tgctggaaac ggggctcgag cgcgaccgag cgaggcccgg ggccgccgcc gtctgcacct
      181 tgggcgggac tcgggagatc ccgctgtgcg ctggctgtga ccagcacatc ctggaccgct
      241 tcatcctcaa ggctctggac cgccactggc acagcaagtg tctcaagtgc agcgactgcc
      301 acacgccact ggccgagcgc tgcttcagcc gaggggagag cgtttactgc aaggacgact
      361 ttttcaagcg cttcgggacc aagtgcgccg cgtgccagct gggcatcccg cccacgcagg
      421 tggtgcgccg cgcccaggac ttcgtgtacc acctgcactg ctttgcctgc gtcgtgtgca
      481 agcggcagct ggccacgggc gacgagttct acctcatgga ggacagccgg ctcgtgtgca
      541 aggcggacta cgaaaccgcc aagcagcgag aggccgaggc cacggccaag cggccgcgca
      601 cgaccatcac cgccaagcag ctggagacgc tgaagagcgc ttacaacacc tcgcccaagc
      661 cggcgcgcca cgtgcgcgag cagctctcgt ccgagacggg cctggacatg cgcgtggtgc
      721 aggtttggtt ccagaaccgc cgggccaagg agaagaggct gaagaaggac gccggccggc
      781 agcgctgggg gcagtatttc cgcaacatga agcgctcccg cggcggctcc aagtcggaca
      841 aggacagcgt tcaggagggg caggacagcg acgctgaggt ctccttcccc gatgagcctt
      901 ccttggcgga aatgggcccg gccaatggcc tctacgggag cttgggggaa cccacccagg
      961 ccttgggccg gccctcggga gccctgggca acttctccct ggagcatgga ggcctggcag
     1021 gcccagagca gtaccgagag ctgcgtcccg gcagccccta cggtgtcccc ccatcccccg
     1081 ccgccccgca gagcctccct ggcccccagc ccctcctctc cagcctggtg tacccagaca
     1141 ccagcttggg ccttgtgccc tcgggagccc ccggcgggcc cccacccatg agggtgctgg
     1201 cagggaacgg acccagttct gacctatcca cggggagcag cgggggttac cccgacttcc
     1261 ctgccagccc cgcctcctgg ctggatgagg tagaccacgc tcagttctga cccaggcccg
     1321 gctccaccct gcacctcaca cgagggagct gcccctgggt gggcggctcg gggctgctgg
     1381 ggtttccgag gaagtggggc cagggcgtca agggagggct ggtgccttcg gagcctccca
     1441 ctgccgaccg cacagctccc tctctggggg ctgagggacc cacctggccc ctcctctgac
     1501 acagggctgg cccgccaggt ggcctcccag caagccagcc ttttttgtaa gcaaatttct
     1561 cccctttatt gaccaattaa ctgagcactt gctgctattt ctagacatga aatgtcacct
     1621 tgctgaggcc cagcccagcc cagcatagcc cgagggctgg aaaaacgctt tcatctctaa
     1681 aactgagaaa tcatcataat tgtgctttca cttcccaggc tccatgtgtc ttggagccgt
     1741 caccccgagg ctccctcttt aggtcggaga ttggccttgc ctgtcgaggc aagaggctgc
     1801 agaggcgggg acacacctgt gtcctccggg agaggccccc tcctctcccc agaccacagg
     1861 gggcctctct gcctccagcc ccaccttccc cgggagaagc tttccccaat ccccaggtct
     1921 ctagatcatt ctgttctcga gtatcctgtg gaggaggcaa aaatgcctgg cgccccttct
     1981 ctccaagctc aattctctaa gcccctcagg gtctcctcct caccccaccc caggcccttg
     2041 gtgtccaggc tgcacccaca gatgtctgtt gccaaacagc ctgccctccc tgccggagcc
     2101 ggctctgcca gccccagatt gggaagtctc cccgctggag aagggtgggg ctcctctgag
     2161 cctgccctgc ctcctccatc agatcctttg ggaagaagtt tctgggagat gcccgcagct
     2221 gtgcgtgccc cagacacaaa ggctggcctg tgtgtaagtc aaagtcactc ccgcaaacct
     2281 gaatctcgag ctacctattg gttctgtgaa tgttctgtgt cttttattta ttctcgggtg
     2341 atcagctctt tccaagactt caataaattt gtcagttaca gtcaa
//
