LOCUS       NM_001107837            3421 bp    mRNA    linear   ROD 12-JUN-2024
DEFINITION  Rattus norvegicus LIM homeobox 6 (Lhx6), mRNA.
ACCESSION   NM_001107837 XM_001079382 XM_231175
VERSION     NM_001107837.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Rattus norvegicus (Norway rat)
  ORGANISM  Rattus norvegicus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Rattus.
REFERENCE   1  (bases 1 to 3421)
  AUTHORS   Elam,H.B., Perez,S.M., Donegan,J.J., Eassa,N.E. and Lodge,D.J.
  TITLE     Knockdown of Lhx6 during embryonic development results in
            neurophysiological alterations and behavioral deficits analogous to
            schizophrenia in adult rats
  JOURNAL   Schizophr Res 267, 113-121 (2024)
   PUBMED   38531158
  REMARK    GeneRIF: Knockdown of Lhx6 during embryonic development results in
            neurophysiological alterations and behavioral deficits analogous to
            schizophrenia in adult rats.
REFERENCE   2  (bases 1 to 3421)
  AUTHORS   Oh,S.G., Hwang,Y.G. and Lee,H.S.
  TITLE     LIM homeobox 6 (Lhx6)+ neurons in the ventral zona incerta project
            to the core portion of the lateral supramammillary nucleus in the
            rat
  JOURNAL   Brain Res 1748, 147125 (2020)
   PUBMED   32931819
  REMARK    GeneRIF: LIM homeobox 6 (Lhx6)+ neurons in the ventral zona incerta
            project to the core portion of the lateral supramammillary nucleus
            in the rat.
REFERENCE   3  (bases 1 to 3421)
  AUTHORS   Jeong,M.S., Hwang,E.Y., Kim,H.T., Yoo,M.A. and Jang,S.B.
  TITLE     Purification of caudal-related homeodomain transcription factor and
            its binding characterization
  JOURNAL   J Microbiol Biotechnol 19 (12), 1557-1564 (2009)
   PUBMED   20075618
  REMARK    GeneRIF: Studied the DNA binding activity of human CDX2. Three
            CDX2-binding proteins were found in rat gastric tissue, and those
            proteins were identified to the homeobox protein Hox-D8, LIM
            homeobox protein 6, and SMC1L1 protein.
REFERENCE   4  (bases 1 to 3421)
  AUTHORS   Du,T., Xu,Q., Ocbina,P.J. and Anderson,S.A.
  TITLE     NKX2.1 specifies cortical interneuron fate by activating Lhx6
  JOURNAL   Development 135 (8), 1559-1567 (2008)
   PUBMED   18339674
REFERENCE   5  (bases 1 to 3421)
  AUTHORS   Liodis,P., Denaxa,M., Grigoriou,M., Akufo-Addo,C., Yanagawa,Y. and
            Pachnis,V.
  TITLE     Lhx6 activity is required for the normal migration and
            specification of cortical interneuron subtypes
  JOURNAL   J Neurosci 27 (12), 3078-3089 (2007)
   PUBMED   17376969
REFERENCE   6  (bases 1 to 3421)
  AUTHORS   Mori,T., Yuxing,Z., Takaki,H., Takeuchi,M., Iseki,K., Hagino,S.,
            Kitanaka,J., Takemura,M., Misawa,H., Ikawa,M., Okabe,M. and
            Wanaka,A.
  TITLE     The LIM homeobox gene, L3/Lhx8, is necessary for proper development
            of basal forebrain cholinergic neurons
  JOURNAL   Eur J Neurosci 19 (12), 3129-3141 (2004)
   PUBMED   15217369
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000003.1.
            
            On Dec 7, 2020 this sequence version replaced NM_001107837.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR26643290.11416.1,
                                           SRR26643289.8775.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA5760383,
                                           SAMEA5760386 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-147               JAXUCZ010000003.1  39853277-39853423   c
            148-219             JAXUCZ010000003.1  39852036-39852107   c
            220-402             JAXUCZ010000003.1  39851473-39851655   c
            403-524             JAXUCZ010000003.1  39850985-39851106   c
            525-745             JAXUCZ010000003.1  39842422-39842642   c
            746-846             JAXUCZ010000003.1  39839790-39839890   c
            847-942             JAXUCZ010000003.1  39839504-39839599   c
            943-1117            JAXUCZ010000003.1  39839146-39839320   c
            1118-1221           JAXUCZ010000003.1  39835363-39835466   c
            1222-3421           JAXUCZ010000003.1  39829871-39832070   c
FEATURES             Location/Qualifiers
     source          1..3421
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="3"
                     /map="3p11"
     gene            1..3421
                     /gene="Lhx6"
                     /note="LIM homeobox 6"
                     /db_xref="GeneID:311901"
                     /db_xref="RGD:1306174"
     exon            1..147
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
     CDS             64..1242
                     /gene="Lhx6"
                     /note="LIM homeobox protein 6"
                     /codon_start=1
                     /product="LIM/homeobox protein Lhx6"
                     /protein_id="NP_001101307.2"
                     /db_xref="GeneID:311901"
                     /db_xref="RGD:1306174"
                     /translation="MYWKHESAAPALPEGCRLPAEGGPTTDQVMAQPGSGCKATTRCL
                     EGTAPPAMAQSDAEALAGALDKDEGRASPCTPSTPSVCSPPSAASSVPSAGKNICSSC
                     GLEILDRYLLKVNNLIWHVRCLECSVCRTSLRQQNSCYIKNKEIYCKMDYFSRFGTKC
                     ARCGRQIYASDWVRRARGNAYHLACFACFSCKRQLSTGEEFGLVEEKVLCRIHYDTMI
                     ENLKRAAENGNGLTLEGAVPSEQDSQPKPAKRARTSFTAEQLQVMQAQFAQDNNPDAQ
                     TLQKLADMTGLSRRVIQVWFQNCRARHKKHTPQHPVPPSGAPPSRLPSSLSDDIHYSP
                     FSSPERARMVTLHGYIESQVQCGQVHCRLPYTAPPVHLKADMDGPLSSRGEKVILFQY
                     "
     exon            148..219
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
     exon            220..402
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
     exon            403..524
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
     exon            525..745
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
     exon            746..846
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
     exon            847..942
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
     exon            943..1117
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
     exon            1118..1221
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
     exon            1222..3421
                     /gene="Lhx6"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 cgaggcccca ctccgtgctg ctctttgcgc tgcgcgccct tcgagccctc agttcccggg
       61 cccatgtact ggaagcatga gagcgccgcc ccggcgctgc ccgagggctg ccggttaccg
      121 gcggagggcg gccccaccac cgaccaggtg atggcccagc cagggtccgg ctgcaaagcg
      181 accacccgct gtcttgaagg gaccgctccg cctgccatgg ctcagtcaga cgccgaggcc
      241 ttggcaggcg ctctggacaa ggacgaaggt agagcctccc catgtacgcc cagcacaccc
      301 tctgtctgct cgccgccctc tgccgcctct tccgtgccgt ctgctggcaa gaatatctgc
      361 tccagttgcg gtctcgagat cctggaccgg tatctgctca aggtcaacaa cctcatctgg
      421 cacgtgcggt gcctcgagtg ctccgtgtgt cgcacatcgc tgaggcagca gaatagctgc
      481 tacatcaaga acaaggagat ctactgcaag atggactact tcagccgatt tggaaccaag
      541 tgtgcccggt gcggcagaca aatctatgcc agtgactggg tgcggcgcgc gcgcggcaat
      601 gcctaccacc tggcctgctt cgcttgcttt tcctgcaagc gccagctatc cacgggcgag
      661 gaattcggcc tggttgagga gaaggtgctt tgccgcatcc attacgacac catgatcgag
      721 aacctcaaga gggccgccga gaacgggaac ggtctcacgt tggagggggc agtgccctcg
      781 gaacaggaca gtcagcccaa gccagctaag cgcgcgcgga cgtccttcac ggcagagcaa
      841 ttgcaggtta tgcaggctca gttcgcgcag gacaacaacc ccgacgcgca gacgctgcag
      901 aagctagcgg acatgacggg cctcagtcgc agggtcatcc aggtgtggtt tcaaaactgc
      961 cgagcgcgtc ataaaaagca tacaccgcag cacccagtgc cgccctctgg ggcacccccg
     1021 tcccgcctcc cctcctccct gtccgacgac atccactatt ctccgttcag cagcccagag
     1081 cgggcacgca tggtcacctt gcacggctac atcgagagtc aggtacagtg cgggcaggtg
     1141 cactgccgac tgccttacac cgcgccccct gtccacctca aagccgacat ggatgggccg
     1201 ctctccagcc ggggtgagaa ggtcatcctt tttcagtact aactctgccg gcgcttgcac
     1261 atctgtccat gggcaccaca cagctgcccc tcagccgctg agcatccagc gtccagctgt
     1321 ggccagggat ccaccgcctc tgggcacacc ctcctcaccc gctgccgccc tgccctctgc
     1381 cagtggcccc atcaacccag ccccggtatt tccctctcct gctgagaacc agaacccgcc
     1441 aggagcagca gagccctctc tgggaaggca ggctccctga aatgtggtat cagcatgaaa
     1501 acaagcagcc tgtctttcct catcatctgg gagtcttgct tatctgggag tcagctgatc
     1561 gcagcagcaa cagctaattc aacaacagcc tcccacttca caggttttct tcttccccca
     1621 tattggcctt catttactac ttccttggaa ccgtctctga gttctgaaca gccaaaacaa
     1681 cccccaacat tatatactcc gctgcttttg tctggaaaac tctacagtgt ttgtgggatg
     1741 tccccaaagg aaagccgtgt tctgatttta tcatttccat ctgtctggtt atgtcaagtt
     1801 aactcagaaa aagaagagac actgaccaac cctgagaggc ccaacagggc agagatggag
     1861 gcctgcccag atgaagaggc agagggatgg gcagggatgg gtgccaaaga ccccccattg
     1921 gcttggagaa ggaggactgg gtatgctgga cttggagagg tgatgagagt ttcatggaga
     1981 gaaaagagga aacttgaggg ggggtgtccc ccacctaatt acccagcagg agttgtggaa
     2041 agaatggcgt ctgatcggca cgatgacacc actgaatgtt taggtgggct agcattaggg
     2101 acccttgttg gccacttttc agtcctgaga tgagggcctg agccagtctt ctctgggggt
     2161 ggggtgagac tactcatgag gaccaaggaa cagagcccag agaaatagca gccatgatat
     2221 tagctcggat tcatccacga ggggagagag gtgcccgtgg cctcagtgag tgcgtgccaa
     2281 gcccaggatt ccagctggca cctcggcagt ctccccacca actgcacaga gccagctcta
     2341 cccactcctg agagcagagg ccagctccaa ataaaggtct caggttacac aggccctcga
     2401 ttcatgtttt cagggggtgc ccatctgccc cgagcttatc ctgtaattct acaaccactt
     2461 ggtggcctga tgcactactc accagaggct gcctagcagc gtgtgttagc caaagtcttc
     2521 ctccctgttt tgaggagact ccaggtcagg aaaggcaaat tccgagtctg tatgctgtcc
     2581 ctccttcacc tgtggcagac atcactaatc gctaatcgat cacacctctc tctctctctc
     2641 tctctctctc tctctctctc tctctctctg tctctcgctc tcgctctcgc tctcgctctc
     2701 gctctctctc gctttctctc gctctcggag tctggataag gtttcagaat tcccaagctt
     2761 gaagttggga tgtgaccaac tgtgctattg ctgaaggacc tggaggaggg ttaggcctgg
     2821 gtgacccccc agaagggaac ttgcatcttt tcccttccaa aaattgtcaa ctgacggagg
     2881 acagagagaa agttcctccc agaaagctga gagtgtggtt cattccggtc agaactccag
     2941 caccctgtgc caggcactga ctcaagcaag aggaacctgg cctgatccct gacttgggga
     3001 acccagatat tccctttgat ttattttgct cctaaggatc aaaaccccca gttgcaacca
     3061 tgtggcaagt ggccagctga gcccaggtta cttggtaccc actctgcctt gagccttccc
     3121 ccagggtcta tttcttgtgt ggatcacgtg gcagtagcat gttgcagttc agacgtctcc
     3181 actactctgt tcaaaacagc ctgggaatgt acaggccatt gaggctattt atttaaatac
     3241 acacacacac acacacacac acacacacac acatgcgcac acacaaaggg gggaacacac
     3301 acaaatggaa acaattgtaa gcactttttt ttgtaaaacc aatgtctgtt ttgttacata
     3361 cctttcatgt tgtgctttgt aaatgtctta tttgtgtaat aaataaagtt aatgcgagta
     3421 g
//
