LOCUS       NM_057109               2392 bp    mRNA    linear   ROD 01-APR-2024
DEFINITION  Rattus norvegicus BarH-like homeobox 1 (Barhl1), mRNA.
ACCESSION   NM_057109
VERSION     NM_057109.2
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 2392)
  AUTHORS   Barh,D., Garcia-Solano,M.E., Tiwari,S., Bhattacharya,A., Jain,N.,
            Torres-Moreno,D., Ferri,B., Silva,A., Azevedo,V., Ghosh,P.,
            Blum,K., Conesa-Zamora,P. and Perry,G.
  TITLE     BARHL1 Is Downregulated in Alzheimer's Disease and May Regulate
            Cognitive Functions through ESR1 and Multiple Pathways
  JOURNAL   Genes (Basel) 8 (10), 245 (2017)
   PUBMED   28956815
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 2392)
  AUTHORS   Chellappa,R., Li,S., Pauley,S., Jahan,I., Jin,K. and Xiang,M.
  TITLE     Barhl1 regulatory sequences required for cell-specific gene
            expression and autoregulation in the inner ear and central nervous
            system
  JOURNAL   Mol Cell Biol 28 (6), 1905-1914 (2008)
   PUBMED   18212062
REFERENCE   3  (bases 1 to 2392)
  AUTHORS   Li,S. and Xiang,M.
  TITLE     Barhl1 is required for maintenance of a large population of neurons
            in the zonal layer of the superior colliculus
  JOURNAL   Dev Dyn 235 (8), 2260-2265 (2006)
   PUBMED   16752387
REFERENCE   4  (bases 1 to 2392)
  AUTHORS   Li,S., Qiu,F., Xu,A., Price,S.M. and Xiang,M.
  TITLE     Barhl1 regulates migration and survival of cerebellar granule cells
            by controlling expression of the neurotrophin-3 gene
  JOURNAL   J Neurosci 24 (12), 3104-3114 (2004)
   PUBMED   15044550
REFERENCE   5  (bases 1 to 2392)
  AUTHORS   Li,S., Price,S.M., Cahill,H., Ryugo,D.K., Shen,M.M. and Xiang,M.
  TITLE     Hearing loss caused by progressive degeneration of cochlear hair
            cells in mice deficient for the Barhl1 homeobox gene
  JOURNAL   Development 129 (14), 3523-3532 (2002)
   PUBMED   12091321
COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
            NCBI review. The reference sequence was derived from
            JAXUCZ010000003.1.
            
            On Nov 27, 2020 this sequence version replaced NM_057109.1.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AB043981.1, SRR26643298.14723.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA5760393, SAMEA5760433
                                           [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
            1-1226              JAXUCZ010000003.1  32645380-32646605   c
            1227-1449           JAXUCZ010000003.1  32641655-32641877   c
            1450-2392           JAXUCZ010000003.1  32639283-32640225   c
FEATURES             Location/Qualifiers
     source          1..2392
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN"
                     /db_xref="taxon:10116"
                     /chromosome="3"
                     /map="3p12"
     gene            1..2392
                     /gene="Barhl1"
                     /gene_synonym="Barhl2; Mbh2"
                     /note="BarH-like homeobox 1"
                     /db_xref="GeneID:117232"
                     /db_xref="RGD:620648"
     exon            1..1226
                     /gene="Barhl1"
                     /gene_synonym="Barhl2; Mbh2"
                     /inference="alignment:Splign:2.1.0"
     CDS             761..1744
                     /gene="Barhl1"
                     /gene_synonym="Barhl2; Mbh2"
                     /note="barH-related homeobox protein 1; bar-class
                     homeodomain protein MBH2; BarH-like 2"
                     /codon_start=1
                     /product="barH-like 1 homeobox protein"
                     /protein_id="NP_476450.1"
                     /db_xref="GeneID:117232"
                     /db_xref="RGD:620648"
                     /translation="MEGSNGFGIDSILSHRAGSPALPKGDPLLGDCRSPLELSPRSES
                     SSDCSSPASPGRDCLETSTSRPGAASGPGLDSHLQPGQLSAPAQSRTVTSSFLIRDIL
                     ADCKPLAACAPYSSSGQPAAPEPGGRLAAKAGEDFRDKLDKSVSSASSDSEYKVKEEG
                     DREISSSRDSPPVRLKKPRKARTAFTDHQLAQLERSFERQKYLSVQDRMELAASLNLT
                     DTQVKTWYQNRRTKWKRQTAVGLELLAEAGNYSALQRMFPSPYFYPQSLVSNLDPGAA
                     LYLYRGPSAPPPALQRPLVPRILIHGLQGASEPPPPLPPLPGVLPRAAQPR"
     exon            1227..1449
                     /gene="Barhl1"
                     /gene_synonym="Barhl2; Mbh2"
                     /inference="alignment:Splign:2.1.0"
     exon            1450..2392
                     /gene="Barhl1"
                     /gene_synonym="Barhl2; Mbh2"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      
        1 gaaacaacaa caaaaaagcc agccctaaag taaaagtgac acaagttcta tttttttttt
       61 aaaggaagga ggggggttgg cggcgaaggc gcgcgccgag gacaggtgag agctgcagtg
      121 ggagcggcag ggagctgtcc acggtgctga cgggccctgg cggggccgag cgtgcacgca
      181 ggagctctgg ggccaggtgg ggctgcttga tcctggggcc gcggccgctg tccgcggtgc
      241 tgagacctcc aggtgcgctc cgttctgcct gctggtaacg cggcccgggc cggctgctat
      301 ccgccgtgct gacccctgcc ctgggctacc gtttgcctgg aggaagcgtg ccgtttggat
      361 tttgcttttt caaaagacga tctttattca gattctatca gcctcgcgtt tcttcagtgc
      421 caaaggggcc ctcgggccgt tcttctaccc tttggctctt cccaacttgg cgcgccctcc
      481 tcccattcct ccctgacact cccaccacca ccaccccacc ccctcggctc ggcggctcgg
      541 cgcggtgctg cagaagacgc tttgagccct tttggatgtg atgcgcagag gaggttggcc
      601 cagagctccc aggctccccc aaggctgaac tccatccaag gtgcccacag gctccctgcc
      661 cgccttcccc atgccagccc gcagctaggg gcaggggcag cggcggctgg ggttgggggt
      721 gggtggggag cttttgggga ggacaggtcg cagcttggct atggaaggct ccaatggctt
      781 tgggattgac tccattctct cccaccgagc gggcagcccc gcccttccca agggggaccc
      841 cttgcttggg gactgccgtt cacccctgga gctgagtcca cgctcagaga gcagcagcga
      901 ctgctcttca ccagcctcgc ccggaagaga ctgtctggag accagtacct cgcggcctgg
      961 tgcagcatct ggcccaggtt tggactccca cctgcagccg gggcagcttt cagccccagc
     1021 ccagtcgcga actgtcacct cctcctttct gatcagggac atccttgctg actgcaaacc
     1081 tctggcggcc tgtgcaccct actctagcag tgggcagcct gcagcccctg agcctggggg
     1141 ccgccttgcg gccaaggccg gggaggactt tcgagacaag ctggacaaaa gtgtcagcag
     1201 cgcttcatcg gactctgagt acaaagtgaa ggaggagggc gaccgcgaaa tctccagctc
     1261 tcgggacagt cctcccgtgc gcctgaaaaa gccacgcaaa gcacgcaccg ccttcaccga
     1321 ccatcagctg gcgcagctgg agcgtagctt cgagcggcag aaatacctga gtgtgcaaga
     1381 ccgcatggag ctggccgcct ctctgaacct caccgacacg caggtcaaga cctggtacca
     1441 gaaccgcagg actaaatgga agcgacagac cgctgtgggg ctggagctgc tagcggaggc
     1501 aggcaattat tcggcgctcc agagaatgtt cccgtcgcct tatttctacc cgcagagtct
     1561 cgtttccaac ctggaccccg gcgccgcact ctatctgtac cgcggaccca gtgcgccacc
     1621 acctgccctc cagagacctc tggtgccccg catcctcatc cacggactcc agggcgccag
     1681 cgagccgccc ccaccgctgc ccccgctgcc cggcgtcctt ccgcgcgctg cgcagccccg
     1741 gtgaagcgcg cgcttgcccc aagccatgct ctgggaccca cagctcagcc tgggcgcggg
     1801 tccctccctt cgtcccgggg cagggctgcc cggctccccg ccgcagccca gtgtccccgt
     1861 gggaaagaaa ttcactgagg ctacccctcc cctgcgtcct ctcttggctg ctccatccag
     1921 gaaccactca cacccgccgg atgtacatat gcgcccctgc ccacctctca gccaccccca
     1981 ggtccctgcc ggcttcccca ggtgtcccct gtcccctcag cagcaggtag gggacgccgg
     2041 tctcccagac ctgggcccac ccttcttgcg cctctgcggg acagggtggg agcgctgtac
     2101 ggagtttccc tcccatttct tttattctcc ctgagccccg ggctagcagc ggagctgtac
     2161 atacagtgtg caaagtgtat atgaagttat ttattcgtga cccatgagcc cgtgaccgtg
     2221 tccgtgaatc agtgagtctg tggcctgtgc cctccccatc ccgggtgggg caggaagggg
     2281 ccgagagggc ttgcccacgc gtcctggccc ccagccccgc tcgctccacc caggtcccag
     2341 gacagccaga tctcttgggt tctctttttt taaatgtgga aataaacttc tt
//
