LOCUS       NM_001083126            3309 bp    mRNA    linear   ROD 31-DEC-2024
DEFINITION  Mus musculus LIM homeobox protein 6 (Lhx6), transcript variant 3,
            mRNA.
ACCESSION   NM_001083126
VERSION     NM_001083126.1
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 3309)
  AUTHORS   Luo,H., Ieong,H.C., Li,R., Huang,D., Chen,D., Chen,X., Guo,Y.,
            Qing,Y., Guo,B., Li,R., Teng,Y., Li,W., Cao,Y., Zhou,C. and Wang,W.
  TITLE     Lhx6 deficiency causes human embryonic palatal mesenchymal cell
            mitophagy dysfunction in cleft palate
  JOURNAL   Mol Med 30 (1), 183 (2024)
   PUBMED   39438838
  REMARK    GeneRIF: Lhx6 deficiency causes human embryonic palatal mesenchymal
            cell mitophagy dysfunction in cleft palate.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3309)
  AUTHORS   Eid,L., Lokmane,L., Raju,P.K., Tene Tadoum,S.B., Jiang,X.,
            Toulouse,K., Lupien-Meilleur,A., Charron-Ligez,F., Toumi,A.,
            Backer,S., Lachance,M., Lavertu-Jolin,M., Montseny,M.,
            Lacaille,J.C., Bloch-Gallego,E. and Rossignol,E.
  TITLE     Both GEF domains of the autism and developmental epileptic
            encephalopathy-associated Trio protein are required for proper
            tangential migration of GABAergic interneurons
  JOURNAL   Mol Psychiatry (2024) In press
   PUBMED   39300136
  REMARK    Publication Status: Available-Online prior to print
REFERENCE   3  (bases 1 to 3309)
  AUTHORS   Lozovaya,N., Moumen,A. and Hammond,C.
  TITLE     Basal Forebrain Cholinergic Neurons Have Specific Characteristics
            during the Perinatal Period
  JOURNAL   eNeuro 11 (5) (2024)
   PUBMED   38755010
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3309)
  AUTHORS   Miyoshi,G., Ueta,Y., Yagasaki,Y., Kishi,Y., Fishell,G.,
            Machold,R.P. and Miyata,M.
  TITLE     Developmental trajectories of GABAergic cortical interneurons are
            sequentially modulated by dynamic FoxG1 expression levels
  JOURNAL   Proc Natl Acad Sci U S A 121 (16), e2317783121 (2024)
   PUBMED   38588430
REFERENCE   5  (bases 1 to 3309)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   6  (bases 1 to 3309)
  AUTHORS   Lavdas,A.A., Grigoriou,M., Pachnis,V. and Parnavelas,J.G.
  TITLE     The medial ganglionic eminence gives rise to a population of early
            neurons in the developing cerebral cortex
  JOURNAL   J Neurosci 19 (18), 7881-7888 (1999)
   PUBMED   10479690
REFERENCE   7  (bases 1 to 3309)
  AUTHORS   Sussel,L., Marin,O., Kimura,S. and Rubenstein,J.L.
  TITLE     Loss of Nkx2.1 homeobox gene function results in a ventral to
            dorsal molecular respecification within the basal telencephalon:
            evidence for a transformation of the pallidum into the striatum
  JOURNAL   Development 126 (15), 3359-3370 (1999)
   PUBMED   10393115
REFERENCE   8  (bases 1 to 3309)
  AUTHORS   Kimura,N., Ueno,M., Nakashima,K. and Taga,T.
  TITLE     A brain region-specific gene product Lhx6.1 interacts with Ldb1
            through tandem LIM-domains
  JOURNAL   J Biochem 126 (1), 180-187 (1999)
   PUBMED   10393337
REFERENCE   9  (bases 1 to 3309)
  AUTHORS   Tucker,A.S., Yamada,G., Grigoriou,M., Pachnis,V. and Sharpe,P.T.
  TITLE     Fgf-8 determines rostral-caudal polarity in the first branchial
            arch
  JOURNAL   Development 126 (1), 51-61 (1999)
   PUBMED   9834185
REFERENCE   10 (bases 1 to 3309)
  AUTHORS   Grigoriou,M., Tucker,A.S., Sharpe,P.T. and Pachnis,V.
  TITLE     Expression and regulation of Lhx6 and Lhx7, a novel subfamily of
            LIM homeodomain encoding genes, suggests a role in mammalian head
            development
  JOURNAL   Development 125 (11), 2063-2074 (1998)
   PUBMED   9570771
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AB031040.1 and BC065077.1.
            
            Transcript Variant: This variant (3) represents the use of an
            alternate promoter, differs in the 5' UTR and uses a downstream
            start codon compared to variant 1. The encoded isoform (3, also
            known as Lhx6.1a) has a shorter N-terminus compared to isoform 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 :: AB031040.1, BC065077.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN01164142 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-66                AB031040.1         1-66
            67-1870             BC065077.1         1-1804
            1871-3309           BC065077.1         1806-3244
FEATURES             Location/Qualifiers
     source          1..3309
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="2"
                     /map="2 24.17 cM"
     gene            1..3309
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /note="LIM homeobox protein 6"
                     /db_xref="GeneID:16874"
                     /db_xref="MGI:MGI:1306803"
     exon            1..167
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /inference="alignment:Splign:2.1.0"
     CDS             99..1190
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /note="isoform 3 is encoded by transcript variant 3;
                     LIM/homeobox protein Lhx6; LIM-homeodomain protein 6.1;
                     LIM/homeobox protein Lhx6.1"
                     /codon_start=1
                     /product="LIM/homeobox protein Lhx6 isoform 3"
                     /protein_id="NP_001076595.1"
                     /db_xref="CCDS:CCDS38113.1"
                     /db_xref="GeneID:16874"
                     /db_xref="MGI:MGI:1306803"
                     /translation="MAQPGSGCKATTRCLEGTAPPAMAQSDAEALAGALDKDEGRASP
                     CTPSTPSVCSPPSAASSVPSAGKNICSSCGLEILDRYLLKVNNLIWHVRCLECSVCRT
                     SLRQQNSCYIKNKEIYCKMDYFSRFGTKCARCGRQIYASDWVRRARGNAYHLACFACF
                     SCKRQLSTGEEFGLVEEKVLCRIHYDTMIENLKRAAENGNGLTLEGAVPSEQDSQPKP
                     AKRARTSFTAEQLQVMQAQFAQDNNPDAQTLQKLADMTGLSRRVIQVWFQNCRARHKK
                     HTPQHPVPPSGAPPTRLPSALSDDIHYSPFSSPERARMVTLHGYIESQVQCGQVHCRL
                     PYTAPPVHLKADLDGPLSSRGEKVILFQY"
     exon            168..350
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /inference="alignment:Splign:2.1.0"
     exon            351..472
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /inference="alignment:Splign:2.1.0"
     exon            473..693
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /inference="alignment:Splign:2.1.0"
     exon            694..794
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /inference="alignment:Splign:2.1.0"
     exon            795..890
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /inference="alignment:Splign:2.1.0"
     exon            891..1065
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /inference="alignment:Splign:2.1.0"
     exon            1066..1169
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /inference="alignment:Splign:2.1.0"
     exon            1170..3292
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3252..3257
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /note="hexamer: AATAAA"
     polyA_site      3288
                     /gene="Lhx6"
                     /gene_synonym="Lhx6.1"
                     /note="major polyA site"
ORIGIN      
        1 cggtttatat aacaggcgag gggaggcgct gggctctgac agctccgagc cagttcagca
       61 gccgccgtcg cctgcattcc ctccccctcc cccaggtgat ggcccagcca gggtccggct
      121 gcaaagcgac cacccgctgt ctcgaaggga ccgctccgcc tgccatggct cagtcagacg
      181 cagaggcctt ggcaggcgct ctggacaagg acgaaggtag agcctcccca tgtacgccca
      241 gcacaccgtc tgtctgctcg ccgccctctg ctgcctcttc cgtgccgtct gccggcaaga
      301 atatctgctc cagttgcggt ctggagatcc tggaccggta tctgctcaag gtcaacaacc
      361 tcatctggca cgtgcggtgc ctcgagtgct ccgtgtgtcg cacatcgctg aggcagcaga
      421 atagctgcta catcaagaac aaggagatct actgcaagat ggactacttc agccgatttg
      481 gaaccaagtg cgcccggtgc ggcagacaaa tctatgccag tgactgggtg cggcgcgcac
      541 gcggcaatgc ctaccacctg gcatgtttcg cctgcttttc ctgcaagcgc cagctatcca
      601 ccggtgagga attcggcctc gttgaggaga aggtgctttg ccgcatccat tacgacacca
      661 tgatcgagaa cctcaagagg gccgccgaga acgggaacgg tctcacgctg gagggggcag
      721 tgccctcgga acaggacagt cagcccaagc cagccaagcg cgcgcggacg tccttcaccg
      781 cagagcaatt gcaggttatg caggcgcagt tcgcgcagga caacaacccg gacgcgcaga
      841 cgctgcagaa gctagcggac atgacgggcc tcagtcgcag ggtcatccag gtgtggtttc
      901 aaaactgccg agcgcgtcat aaaaagcata caccgcagca cccagtgccg ccctctgggg
      961 cacccccgac ccgcctccct tctgccctgt ccgacgacat ccactactct ccgttcagca
     1021 gcccagagag ggcgcgcatg gtcaccttgc acggctacat tgagagtcag gtacagtgcg
     1081 ggcaggtgca ctgccgactg ccttacaccg cgccccctgt ccacctcaaa gctgatttgg
     1141 acggcccgct ctccagccgg ggtgagaagg tcatcctttt tcagtactaa cgctgccggc
     1201 gcttgcacat ctgtccatgg gcaccacaca gctgcccctc agccgctgag atccagcatc
     1261 cagctgtggc cagggatcca ccacctctgt gtacaccctc acccgctgct gtcctgccct
     1321 ctgccagtgg ccccatcaac ccaggcctgg tctttccctc tcctgctgag aaccagaacc
     1381 caccaggagc agcagagtcc ctctctggga aggcaggctc cctgaaatgt ggcatcagca
     1441 tgaaaacaag cagcctgtct ttcctcatta actgggagtc ccacttacct actgtcagct
     1501 gatcacagca gcaatggcta attcagtccg agtcaacaac agcctcctac ttcacaggtt
     1561 ctcttctccc ccacattggc ctttatttac tacttccttg gaaccatctc caaattccaa
     1621 atagccaaca acccccaaca ttatatactc tgctgctttt gtctggaaaa ctctacagtg
     1681 tttgtgggat atccccaaag gaaagctgtg ttctaatttt atcatttcca tctgtctggt
     1741 tatgtcaagt taactcagaa aaagaagaga cactgaccaa ccctgagagg cccaacaggg
     1801 cagagatgga ggcctgccca gatgaagagg cagaggatgg gcagggatgg gtgccaaaga
     1861 cccccccccc aattggcttg gaggagaagg actgggtacg ctggacttgg agaggtgacg
     1921 agagtttcat ggagagaaaa gaggaaactt ggggggggcg gagtttcccc cacccaatta
     1981 cctagcagga gtcgtggaaa ggatggcgtc tgatctgcac gatgacacca ctgaatgttt
     2041 aggtgggcta gcattagcga cccttgttgg ccacttttca gtcctgagat gagggcctga
     2101 gccagtcttc tctaggggtg ggatgagact actcacgagg accaaggaac agagcccaga
     2161 gaaacagcag ccagaatatt agttctgatt catccccgag ggaagagagg tacccatggc
     2221 ttcagtgagc acatgccaag cccaggatgc cagctggcac ctctgcaatc tccccaccaa
     2281 atacacagag ccagctctac ccactcctaa gagcagaggc caactctaaa gaaaggtctc
     2341 aggttacaca ggccccccca cttatgtttt caggggatgc catttatccc aagcttatcc
     2401 tgtaattcta gaatgacttg gtgtcctgat gcacttctca ccagaggctg cctagcagca
     2461 tgtgttagcc aaagtcttcc tccttgtttt gagaagactc caggacagga caggcaaatt
     2521 catggtatgt atgcagttgc tgctcctgct tcacctgtgg cagacatcgc taatcgatca
     2581 cagcactcta tctctcagag tctggataag aattcccatg cttgttggga cgagaccaac
     2641 tgtgctgttg ctatgggacc tggaggaggg ttaggcatgg gtgacacccc agaagggaac
     2701 tttcatcttt tcccttccaa aaattgtcaa ctgactgagg acaaagagaa agcacctccc
     2761 agaaagctgt gagcgtggtt tggttcagaa ctccagcacc ctgtgccagg cactgactca
     2821 agcaagagga acctggcctg atccctgact ttggggaacc cagatctttc ctttgatttt
     2881 tgctcctaat gatcaaaacc ccaattgcaa ccatgtggca agtggccagc tgagcccagg
     2941 ttacttggta cccactctgc cttgagcctt ccttccccca gggcctattt cttgtgtgga
     3001 tcacgtggca gtagcatgtt gcagtcagac gtctccacta ccctgttgag aacagcctgg
     3061 gaatgtacag gtcatcgagg ctatttattt aaacacacac acacacacac acacacacac
     3121 acacacacac acacacacgg gggaacacac acaaatggaa aaaaattgta agcacttttt
     3181 ttgtaaaacc aatgtctgtt ttgttacata cctttcatgt tgtgctttgt aaatgtctta
     3241 tttgtgtaat aaataaagtt aatgcgagta gaagtgccgg cacttaaacc caaaaaaaaa
     3301 aaaaaaaaa
//
