LOCUS       NM_139036               1890 bp    mRNA    linear   ROD 30-APR-2025
DEFINITION  Rattus norvegicus LIM homeobox 5 (Lhx5), mRNA.
ACCESSION   NM_139036
VERSION     NM_139036.2
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 1890)
  AUTHORS   Zhao,Y., Kwan,K.M., Mailloux,C.M., Lee,W.K., Grinberg,A., Wurst,W.,
            Behringer,R.R. and Westphal,H.
  TITLE     LIM-homeodomain proteins Lhx1 and Lhx5, and their cofactor Ldb1,
            control Purkinje cell differentiation in the developing cerebellum
  JOURNAL   Proc Natl Acad Sci U S A 104 (32), 13182-13186 (2007)
   PUBMED   17664423
REFERENCE   2  (bases 1 to 1890)
  AUTHORS   Pillai,A., Mansouri,A., Behringer,R., Westphal,H. and Goulding,M.
  TITLE     Lhx1 and Lhx5 maintain the inhibitory-neurotransmitter status of
            interneurons in the dorsal spinal cord
  JOURNAL   Development 134 (2), 357-366 (2007)
   PUBMED   17166926
REFERENCE   3  (bases 1 to 1890)
  AUTHORS   Zhao,Y., Sheng,H.Z., Amini,R., Grinberg,A., Lee,E., Huang,S.,
            Taira,M. and Westphal,H.
  TITLE     Control of hippocampal morphogenesis and neuronal differentiation
            by the LIM homeobox gene Lhx5
  JOURNAL   Science 284 (5417), 1155-1158 (1999)
   PUBMED   10325223
REFERENCE   4  (bases 1 to 1890)
  AUTHORS   Tsuchida,T., Ensini,M., Morton,S.B., Baldassare,M., Edlund,T.,
            Jessell,T.M. and Pfaff,S.L.
  TITLE     Topographic organization of embryonic motor neurons defined by
            expression of LIM homeobox genes
  JOURNAL   Cell 79 (6), 957-970 (1994)
   PUBMED   7528105
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            JAXUCZ010000012.1.
            
            On Dec 5, 2020 this sequence version replaced NM_139036.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: L35572.1, SRR26643298.81029.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760433, SAMN14984038
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on single protein-coding transcript
            ##RefSeq-Attributes-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-510               JAXUCZ010000012.1  41794674-41795183   c
            511-734             JAXUCZ010000012.1  41792458-41792681   c
            735-1012            JAXUCZ010000012.1  41791574-41791851   c
            1013-1178           JAXUCZ010000012.1  41790744-41790909   c
            1179-1890           JAXUCZ010000012.1  41786746-41787457   c
FEATURES             Location/Qualifiers
     source          1..1890
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="12"
                     /map="12q16"
     gene            1..1890
                     /gene="Lhx5"
                     /note="LIM homeobox 5"
                     /db_xref="GeneID:124451"
                     /db_xref="RGD:71079"
     exon            1..510
                     /gene="Lhx5"
                     /inference="alignment:Splign:2.1.0"
     misc_feature    248..250
                     /gene="Lhx5"
                     /note="upstream in-frame stop codon"
     CDS             338..1546
                     /gene="Lhx5"
                     /note="LIM homeobox protein 5; homeobox protein LIM-2"
                     /codon_start=1
                     /product="LIM/homeobox protein Lhx5"
                     /protein_id="NP_620605.1"
                     /db_xref="GeneID:124451"
                     /db_xref="RGD:71079"
                     /translation="

MMVHCAGCERPILDRFLLNVLDRAWHIKCVQCCECKTNLSEKCFSREGKLYCKNDFFRRFGTKCAGCAQGISPSDLVRKARSKVFHLNCFTCMVCNKQLSTGEELYVIDENKFVCKDDYLSSSSLKEGSLNSVSSCTDRSLSPDLQDPLQDDPKETDNSTSSDKETANNENEEQNSGTKRRGPRTTIKAKQLETLKAAFAATPKPTRHIREQLAQETGLNMRVIQVWFQNRRSKERRMKQLSALGARRHAFFRSPRRMRPLGGRLDESEMLGSTPYTYYGDYQSDYYAPGGNYDFFAHGPPSQAQSPADSSFLAASGPGSTPLGALEPPLAGPHGADNPRFTDMISHPDTPSPEPGLPGALHPMPGEVFSGGPSPPFPMSGTSGYSGPLSHPNPELNEAAVW"

     misc_feature    350..505
                     /gene="Lhx5"
                     /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(350..352,359..361,413..415,422..424,431..433,
                     440..442,491..493,500..502)
                     /gene="Lhx5"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:188753"
     misc_feature    527..694
                     /gene="Lhx5"
                     /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(527..529,536..538,593..595,602..604,611..613,
                     620..622,680..682,689..691)
                     /gene="Lhx5"
                     /note="Zn binding site [ion binding]; other site"
                     /db_xref="CDD:188761"
     misc_feature    707..895
                     /gene="Lhx5"
                     /note="propagated from UniProtKB/Swiss-Prot (P61376.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    878..1048
                     /gene="Lhx5"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     misc_feature    <1076..>1513
                     /gene="Lhx5"
                     /note="EBNA-3B; Provisional; Region: PHA03378"
                     /db_xref="CDD:223065"
     misc_feature    1229..1543
                     /gene="Lhx5"
                     /note="propagated from UniProtKB/Swiss-Prot (P61376.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     exon            511..734
                     /gene="Lhx5"
                     /inference="alignment:Splign:2.1.0"
     exon            735..1012
                     /gene="Lhx5"
                     /inference="alignment:Splign:2.1.0"
     exon            1013..1178
                     /gene="Lhx5"
                     /inference="alignment:Splign:2.1.0"
     exon            1179..1890
                     /gene="Lhx5"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

cggcgcctccgccaaccgggaaagccgctcgccagtgccgaagccagcagccgccgaggacacctgctcgaagctggagcgagcgcccagacgcgacccgtgacatgaggctgtgaccgccgccgccctccacgccactctgggcagtgcagtgccaggccggagagcgtcggaggacttgaccccgagaagtcttggttgatctgtatcggactcgaccctaccgaagaccacagaccaggggggctgagagccacagcagcggggaccgagaggccctaagggcccaggggccccaaggaggacgaggcggcccgagccgccggggcgcgcggctatgatggtgcactgtgccggctgtgagcggcccatcctcgaccgctttctgctgaacgtgctggaccgcgcgtggcatatcaaatgtgttcaatgctgcgagtgcaaaaccaacctctcggagaagtgtttctcccgggagggcaagctgtactgtaaaaacgacttcttcaggcgctttggcacaaagtgcgccggctgtgcgcaaggtatctctcccagcgacctggtgcgcaaggcccggagcaaagtcttccacctcaactgcttcacctgcatggtgtgcaacaagcagctgtccaccggagaagaactctacgtgatcgacgagaacaagtttgtgtgcaaggacgactacttaagctcctctagtctcaaagagggaagcctcaactcagtgtcatcctgtacggaccgcagtttgtctccggacctccaagatccgttacaggacgaccccaaagagaccgacaactcgacctcatcggacaaggagaccgctaacaacgagaatgaggaacagaactccggcaccaaacggcgcggcccgcgcactaccatcaaggccaagcagctggagacgctcaaggcagccttcgcagccacgcccaagcccacgcgccacatccgcgaacagctggcacaagagaccggcctcaacatgagggtcattcaggtgtggtttcagaaccgaaggtccaaagaacgccgcatgaaacagctgagcgctctgggcgcccggagacacgccttcttccggagtccgcggcgcatgcgtcccctgggcggccgcttggacgagtctgagatgttggggtctaccccatatacttattatggagactaccaaagcgactactacgctccgggaggcaactacgatttcttcgcgcacggcccgccgtcgcaggcacagtctccggccgactcaagcttcttggcagcatcgggacctggctcgacgccgcttggcgcgctggaaccaccgctggctgggcctcacggcgcggacaaccctaggttcaccgacatgatctcgcacccggacacgcccagtccggagccaggcttgcccggagcgctgcaccccatgccgggagaggtgttcagcggcgggcccagcccgcccttccccatgagcggcaccagcggctacagcggacccctgtcgcaccccaatcctgagctcaacgaagcggccgtatggtaaggccgaggggccgagttgacccctgccaccaagccccggacgccgcctgggtaagccacaagagtcttctcttgagtttgcacccaccaggcaactcgcatcaccacccctcagagcttcggcacgcgcctgcacagtttctcgggaccaaagtcaatattctggagggtcgagattccaagcacaccctagaagccctccggacccccacccaaccatcacctctttgaattaagagggggaggggatgagacaaggaacggagatcgtggtactacccctccctgcgagccgaggcattgtggaatcctatttctcgctttctctttttaaaaaggaaggaa

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